1
|
Chen B, Chai C, Duan M, Yang X, Cai Z, Jia J, Xia Q, Luo S, Yin L, Li Y, Huang N, Ma Q, Nian H, Cheng Y. Identification of quantitative trait loci for lodging and related agronomic traits in soybean (Glycine max [L.] Merr.). BMC Genomics 2024; 25:900. [PMID: 39350068 PMCID: PMC11440893 DOI: 10.1186/s12864-024-10794-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 09/11/2024] [Indexed: 10/04/2024] Open
Abstract
BACKGROUND Lodging, a crucial agronomic trait linked to soybean yield, poses a significant challenge in soybean production. Nevertheless, there has been less research on soybean lodging compared to other important agronomic traits, hindering progress in breeding high-yield soybeans. Our goals were to investigate lodging, pinpoint quantitative trait loci (QTL) linked to lodging, and forecast potential candidate genes linked to this trait. To achieve this, we employed a recombinant inbred line (RIL) population derived from a cross between Guizao 1 and B13 (GB) across various environments. RESULTS The lodging score of the RIL population was found to be significantly positively correlated with flowering time, maturity time, plant height, number of main stem nodes, stem diameter, and internode length, with correlation coefficients ranging from 0.457 to 0.783. A total of 84 QTLs associated with soybean lodging and related traits were identified using the GB population. The contribution of phenotypic variance ranged from 1.26 to 66.87%, with LOD scores ranging from 2.52 to 69.22. Additionally, within these QTLs, a stable major QTL associated with lodging was newly discovered in the GB population. Out of the ten major QTLs associated with other related traits, nine of them were situated within the qLD-4-1 interval of the major lodging score locus, displaying phenotypic variations ranging from 12.10 to 66.87%. Specific alterations in gene expression were revealed through the analysis of resequencing data from the two parental lines, potentially indicating their significant roles in lodging. Subsequently, it was determined through qRT-PCR that four genes are likely to be the major genes controlling soybean lodging. CONCLUSIONS This study's findings offer valuable insights into the genetic underpinnings of soybean lodging resistance traits. By comprehending the potential genetic factors associated with lodging, this research lays the groundwork for breeding high-yield soybeans with improved lodging resistance.
Collapse
Affiliation(s)
- Bo Chen
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Cheng Chai
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Mingming Duan
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Ximeng Yang
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Zhandong Cai
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Jia Jia
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Qiuju Xia
- Rice Molecular Breeding Institute, Granlux Associated Grains, Shenzhen, Guangdong, 518023, People's Republic of China
| | - Shilin Luo
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Lu Yin
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Yunxia Li
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Nianen Huang
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Qibin Ma
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China
| | - Hai Nian
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
| | - Yanbo Cheng
- The Key Laboratory of Plant Molecular Breeding of Guangdong Province, College of Agriculture, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
- Guangdong Provincial Laboratory of Lingnan Modern Agricultural Science and Technology, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.
| |
Collapse
|
2
|
Peracchi LM, Brew-Appiah RAT, Garland-Campbell K, Roalson EH, Sanguinet KA. Genome-wide characterization and expression analysis of the CINNAMYL ALCOHOL DEHYDROGENASE gene family in Triticum aestivum. BMC Genomics 2024; 25:816. [PMID: 39210247 PMCID: PMC11363449 DOI: 10.1186/s12864-024-10648-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Accepted: 07/22/2024] [Indexed: 09/04/2024] Open
Abstract
BACKGROUND CINNAMYL ALCOHOL DEHYDROGENASE (CAD) catalyzes the NADPH-dependent reduction of cinnamaldehydes into cinnamyl alcohols and is a key enzyme found at the final step of the monolignol pathway. Cinnamyl alcohols and their conjugates are subsequently polymerized in the secondary cell wall to form lignin. CAD genes are typically encoded by multi-gene families and thus traditionally organized into general classifications of functional relevance. RESULTS In silico analysis of the hexaploid Triticum aestivum genome revealed 47 high confidence TaCAD copies, of which three were determined to be the most significant isoforms (class I) considered bone fide CADs. Class I CADs were expressed throughout development both in RNAseq data sets as well as via qRT-PCR analysis. Of the 37 class II TaCADs identified, two groups were observed to be significantly co-expressed with class I TaCADs in developing tissue and under chitin elicitation in RNAseq data sets. These co-expressed class II TaCADs were also found to be phylogenetically unrelated to a separate clade of class II TaCADs previously reported to be an influential resistance factor to pathogenic fungal infection. Lastly, two groups were phylogenetically identified as class III TaCADs, which possess distinct conserved gene structures. However, the lack of data supporting their catalytic activity for cinnamaldehydes and their bereft transcriptional presence in lignifying tissues challenges their designation and function as CADs. CONCLUSIONS Taken together, our comprehensive transcriptomic analyses suggest that TaCAD genes contribute to overlapping but nonredundant functions during T. aestivum growth and development across a wide variety of agroecosystems and provide tolerance to various stressors.
Collapse
Affiliation(s)
- Luigi M Peracchi
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA
- Molecular Plant Sciences Graduate Group, Washington State University, Pullman, WA, 99164, USA
| | - Rhoda A T Brew-Appiah
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA
| | - Kimberly Garland-Campbell
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA
- Molecular Plant Sciences Graduate Group, Washington State University, Pullman, WA, 99164, USA
- USDA-ARS Wheat Health, Genetics and Quality Research, Pullman, WA, 99164, USA
| | - Eric H Roalson
- Molecular Plant Sciences Graduate Group, Washington State University, Pullman, WA, 99164, USA
- School of Biological Sciences, Washington State University, Pullman, WA, 99164, USA
| | - Karen A Sanguinet
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164, USA.
- Molecular Plant Sciences Graduate Group, Washington State University, Pullman, WA, 99164, USA.
| |
Collapse
|
3
|
Guo Y, Zhang G, Li Z, Liao X, Sun W, Jiang X. Revealing the Effects of Zinc Sulphate Treatment on Melatonin Synthesis and Regulatory Gene Expression in Germinating Hull-Less Barley through Transcriptomic Analysis. Genes (Basel) 2024; 15:1077. [PMID: 39202436 PMCID: PMC11354046 DOI: 10.3390/genes15081077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2024] [Revised: 07/28/2024] [Accepted: 08/12/2024] [Indexed: 09/03/2024] Open
Abstract
This study investigated the transcriptomic mechanisms underlying melatonin accumulation and the enhancement of salt tolerance in hull-less barley seeds subjected to zinc sulphate stress. Following zinc sulphate treatment, hull-less barley seeds demonstrated increased melatonin accumulation and improved salt tolerance. Through transcriptome analysis, the study compared gene expression alterations in seeds (using the first letter of seed, this group is marked as 'S'), seeds treated with pure water (as the control group, is marked as 'C'), and germinated seeds exposed to varying concentrations of zinc sulphate (0.2 mM and 0.8 mM, the first letter of zinc sulphate, 'Z', is used to mark groups 'Z1' and 'Z2'). The analysis revealed that 8176, 759, and 622 differentially expressed genes (DEGs) were identified in the three comparison groups S.vs.C, C.vs.Z1, and C.vs.Z2, respectively. Most of the DEGs were closely associated with biological processes, including oxidative-stress response, secondary metabolite biosynthesis, and plant hormone signaling. Notably, zinc sulphate stress influenced the expression levels of Tryptophan decarboxylase 1 (TDC1), Acetylserotonin O-methyltransferase 1 (ASMT1), and Serotonin N-acetyltransferase 2 (SNAT2), which are key genes involved in melatonin synthesis. Furthermore, the expression changes of genes such as Probable WRKY transcription factor 75 (WRKY75) and Ethylene-responsive transcription factor ERF13 (EFR13) exhibited a strong correlation with fluctuations in melatonin content. These findings contribute to our understanding of the mechanisms underlying melatonin enrichment in response to zinc sulphate stress.
Collapse
Affiliation(s)
| | - Guoqiang Zhang
- School of Biological and Food Engineering, Anhui Polytechnic University, Wuhu 241000, China; (Y.G.); (Z.L.); (X.L.); (W.S.); (X.J.)
| | | | | | | | | |
Collapse
|
4
|
Alagarsamy M, Amal TC, Karuppan S, Adhimoolam K. Comparative proteomic analysis of resistant and susceptible cotton genotypes in response to leaf hopper infestation. J Proteomics 2024; 305:105258. [PMID: 39004338 DOI: 10.1016/j.jprot.2024.105258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2024] [Revised: 07/02/2024] [Accepted: 07/11/2024] [Indexed: 07/16/2024]
Abstract
The cotton leaf hopper is a major pest in cotton, causing a hopper burn in leaves. In this study, a comparative proteomic analysis of NDLH2010 (Resistant) and LRA5166 (Susceptible), infected with leaf hopper, was employed using a nano LC-MS/MS approach. A total of 1402 proteins varied significantly between leaf hopper-infected and control plants. The resistant and susceptible genotypes had differentially expressed proteins (DEPs) of 743 and 659, respectively. Functional annotation of DEPs revealed that the DEPs were primarily associated with stress response, hormone synthesis, photosynthesis, cell wall, and secondary metabolites. Notably, DEPs such as polyphenol oxidase, carboxypeptidase, heat shock proteins, protein BTR1-like isoform X2, chaperone protein ClpB1, and β glucosidase factors associated with environmental stress response were also detected. Quantitative real-time PCR (qRT-PCR) analysis confirmed a positive correlation between protein abundances and transcripts for all genes. Collectively, this study provides the molecular mechanisms associated with cotton defense responses against leaf hopper. SIGNIFICANCE STATEMENT: Cotton, a natural fiber, assumes a pivotal role as a raw material for textile industries, thereby bearing significant importance in the global economy. The cotton production sector is considerably affected by both biotic and abiotic stresses. The cotton leaf hopper (Amrasca biguttula biguttula (Ishida)) stands as a polyphagous insect, emerging as a dominant sap-feeding pest of the cotton crop. The continuous onslaught of sap-feeding insects on cotton plants has a detrimental impact, with leaf hoppers potentially causing yield reductions of up to 50%. Therefore, comprehending the molecular interplay between cotton and leaf hopper, elucidated at the proteome level, holds promise for more effective pest management strategies. This approach holds the potential to offer insights that contribute to the development of leaf hopper-resistant cotton varieties.
Collapse
Affiliation(s)
- Manivannan Alagarsamy
- ICAR-Central Institute for Cotton Research, Regional Station, Coimbatore, TN, India.
| | - Thomas Cheeran Amal
- ICAR-Central Institute for Cotton Research, Regional Station, Coimbatore, TN, India
| | | | - Karthikeyan Adhimoolam
- Subtropical Horticulture Research Institute, Jeju National University, Jeju, South Korea
| |
Collapse
|
5
|
Wu M, Li Y, Liu Z, Xia L, Xiang Y, Zhao L, Yang X, Li Z, Xie X, Wang L, Wang R, Xu S, Yang J. Genome-wide identification of the CAD gene family and functional analysis of putative bona fide CAD genes in tobacco ( Nicotiana tabacum L.). FRONTIERS IN PLANT SCIENCE 2024; 15:1400213. [PMID: 39040505 PMCID: PMC11261167 DOI: 10.3389/fpls.2024.1400213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Accepted: 06/11/2024] [Indexed: 07/24/2024]
Abstract
Cinnamyl alcohol dehydrogenase (CAD) plays a crucial role in lignin biosynthesis, and the gene family encoding various CAD isozymes has been cloned and characterized in numerous plant species. However, limited information regarding the CAD gene family in tobacco is currently available. In this study, we identified 10 CAD genes in Nicotiana tabacum, four in N. tomentosiformis, and six in N. sylvestris. The nucleotide and amino acid sequences of these tobacco CADs demonstrate high levels of similarity, whereas the putative protein sequences conservatively possessed two Zn2+ binding motifs and an NADP(H) cofactor binding motif. Both NtCAD1 and NtCAD2 had conservative substrate binding sites, similar to those possessed by bona fide CADs, and evidence from phylogenetic analysis as well as expression profiling supported their role as bona fide CADs involved in lignin biosynthesis. NtCAD1 has two paralogous genes, NtCAD1-1 and NtCAD1-2. Enzyme activity analysis revealed that NtCAD1-1 and NtCAD1-2 had a high affinity to coniferyl aldehyde, p-coumaryl aldehyde, and sinapyl aldehyde, whereas NtCAD2 preferred coniferyl aldehyde and p-coumaryl aldehyde as substrates. The kinetic parameter assay revealed that NtCAD1-2 functions as the most efficient enzyme. Downregulation of both NtCAD1-1 and NtCAD1-2 resulted in reddish-brown stems without significant changes in lignin content. Furthermore, NtCAD1-1, NtCAD1-2, and NtCAD2 showed distinct expression patterns in response to biotic and abiotic stresses, as well as different phytohormones. Our findings suggest that NtCAD1-1 and NtCAD1-2 are involved in lignin biosynthesis, with NtCAD1-2 also participating in both biological and abiotic stresses, whereas NtCAD2 plays a distinct role mainly in responding to biological and abiotic stresses in tobacco.
Collapse
Affiliation(s)
- Mingzhu Wu
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Yijun Li
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Zhengtai Liu
- Nanjing University of Chinese Medicine, Nanjing, China
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, China
| | - Lin Xia
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Yiyu Xiang
- Nanjing University of Chinese Medicine, Nanjing, China
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, China
| | - Lijie Zhao
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Xiaobei Yang
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Zefeng Li
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Xiaodong Xie
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| | - Lin Wang
- College of Life Science, Henan Agricultural University, Zhengzhou, China
| | - Ren Wang
- Nanjing University of Chinese Medicine, Nanjing, China
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, China
| | - Sheng Xu
- Nanjing University of Chinese Medicine, Nanjing, China
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, China
| | - Jun Yang
- China Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC), Zhengzhou, China
| |
Collapse
|
6
|
Yang X, Xie Y, Wang T, Qiao Y, Li J, Wu L, Gao Y. Transcriptomic analysis of the response of Avena sativa to Bacillus amyloliquefaciens DGL1. Front Microbiol 2024; 15:1321989. [PMID: 38633698 PMCID: PMC11022965 DOI: 10.3389/fmicb.2024.1321989] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2023] [Accepted: 02/19/2024] [Indexed: 04/19/2024] Open
Abstract
Introduction Bacillus amyloliquefaciens DGL1, isolated from the arid sandy areas in Dagler, Qinghai Province, China, promotes the growth of Avena sativa variety "Qing Yan 1". Methods To elucidate the transcriptomic changes in the oat root system following interaction with DGL1 and to reveal the molecular mechanism by which DGL1 promotes oat growth, treatment and control groups of oat roots at 2, 4, 8, and 12 h after inoculation with a suspension of strain DGL1 were analyzed using Illumina high-throughput transcriptome sequencing technology. The differentially expressed genes were determined through Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses, and the metabolic pathways and key genes were analyzed. Results The results showed that 7874, 13,392, 13,169, and 19,026 differentially expressed genes were significantly enriched in the glycolysis/gluconeogenesis pathway, amino acid metabolism, nitrogen metabolism, plant hormone signal transduction, and other related metabolic pathways in the oat roots at 2, 4, 8, and 12 h after inoculation with a DGL1 suspension. The GO and KEGG enrichment analyses revealed that the genes encoding plasma membrane ATPase, phosphoglycerate kinase gene PGK, ammonium transporter protein gene AMT, cellulose synthase gene CSLF6, and growth hormone response family gene IAA18 were significantly upregulated. Discussion It is hypothesized that the pro-growth mechanism of strain DGL1 in oats is the result of the coordination of multiple pathways through the promotion of oat energy metabolism, phytohormone signaling, secondary metabolite synthesis, and amino acid metabolism.
Collapse
Affiliation(s)
- Xue Yang
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
- Key Laboratory of Use of Forage Germplasm Resources on Tibetan Plateau of Qinghai Province, Xining, Qinghai, China
| | - Yongli Xie
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
- Key Laboratory of Use of Forage Germplasm Resources on Tibetan Plateau of Qinghai Province, Xining, Qinghai, China
- State Key Laboratory of Plateau Ecology and Agriculture of Qinghai University Xining, Xining, Qinghai, China
| | - Tian Wang
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
| | - Youming Qiao
- State Key Laboratory of Plateau Ecology and Agriculture of Qinghai University Xining, Xining, Qinghai, China
| | - Junxi Li
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
| | - Lingling Wu
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
| | - Ying Gao
- College of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, China
| |
Collapse
|
7
|
Peracchi LM, Panahabadi R, Barros-Rios J, Bartley LE, Sanguinet KA. Grass lignin: biosynthesis, biological roles, and industrial applications. FRONTIERS IN PLANT SCIENCE 2024; 15:1343097. [PMID: 38463570 PMCID: PMC10921064 DOI: 10.3389/fpls.2024.1343097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Accepted: 02/06/2024] [Indexed: 03/12/2024]
Abstract
Lignin is a phenolic heteropolymer found in most terrestrial plants that contributes an essential role in plant growth, abiotic stress tolerance, and biotic stress resistance. Recent research in grass lignin biosynthesis has found differences compared to dicots such as Arabidopsis thaliana. For example, the prolific incorporation of hydroxycinnamic acids into grass secondary cell walls improve the structural integrity of vascular and structural elements via covalent crosslinking. Conversely, fundamental monolignol chemistry conserves the mechanisms of monolignol translocation and polymerization across the plant phylum. Emerging evidence suggests grass lignin compositions contribute to abiotic stress tolerance, and periods of biotic stress often alter cereal lignin compositions to hinder pathogenesis. This same recalcitrance also inhibits industrial valorization of plant biomass, making lignin alterations and reductions a prolific field of research. This review presents an update of grass lignin biosynthesis, translocation, and polymerization, highlights how lignified grass cell walls contribute to plant development and stress responses, and briefly addresses genetic engineering strategies that may benefit industrial applications.
Collapse
Affiliation(s)
- Luigi M. Peracchi
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, United States
| | - Rahele Panahabadi
- Institute of Biological Chemistry, Washington State University, Pullman, WA, United States
| | - Jaime Barros-Rios
- Division of Plant Sciences and Interdisciplinary Plant Group, University of Missouri, Columbia, MO, United States
| | - Laura E. Bartley
- Institute of Biological Chemistry, Washington State University, Pullman, WA, United States
| | - Karen A. Sanguinet
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA, United States
| |
Collapse
|
8
|
Yang M, Chen S, Chao K, Ji C, Shi Y. Effects of nano silicon fertilizer on the lodging resistance characteristics of wheat basal second stem node. BMC PLANT BIOLOGY 2024; 24:54. [PMID: 38238669 PMCID: PMC10795224 DOI: 10.1186/s12870-024-04735-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/25/2023] [Accepted: 01/09/2024] [Indexed: 01/22/2024]
Abstract
The application of nano fertilizers is one of the hotspots in current agricultural production. In this study, nano silicon materials were mixed with compound fertilizers to make nano silicon fertilizer. The effects of different amounts of nano silicon application on the breaking-resistance strength, lodging-resistance index, lignin accumulation, lignin synthesis related enzymes, and the relative expression of lignin synthesis related genes in the second stem node of wheat were mainly studied. Four treatments were set up: CK (750 kg·ha-1 compound fertilizer), T1 (750 kg·ha-1 compound fertilizer + 0.9 kg·ha-1 nano silicon), T2 (750 kg·ha-1 compound fertilizer + 1.8 kg·ha-1 nano silicon), T3 (750 kg·ha-1 compound fertilizer + 2.7 kg·ha-1 nano silicon). The results of the two-year experiment showed that the breaking-resistance strength, lodging-resistance index, lignin accumulation in the second stem node of wheat treated with nano silicon fertilizer were higher than CK. In the first year of the experiment, the lignin accumulation of T2 was 130.73%, 5.14% and 7.25% higher than that of CK, T1 and T3 respectively at the maturity stage. In the second year of the experiment, the lignin accumulation of T2 was 20.33%, 11.19% and 9.89% higher than that of CK, T1 and T3 respectively at the maturity stage. And the activities of PAL, 4CL, CAD, and related gene expression levels were also higher than CK. And among them, T2 performed the best, indicating that the application of nano silicon fertilizer is beneficial for improving the lodging resistance of wheat stems and is of great significance for improving the quality of wheat.
Collapse
Affiliation(s)
- Min Yang
- Dryland-technology Key Laboratory of Shandong Province, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China
| | - Shuang Chen
- Dryland-technology Key Laboratory of Shandong Province, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China
| | - Kui Chao
- Dryland-technology Key Laboratory of Shandong Province, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China
| | - Cexun Ji
- Dryland-technology Key Laboratory of Shandong Province, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China
| | - Yan Shi
- Dryland-technology Key Laboratory of Shandong Province, College of Agronomy, Qingdao Agricultural University, Qingdao, 266109, China.
| |
Collapse
|
9
|
Transcriptome analysis identifies differentially expressed genes involved in lignin biosynthesis in barley. Int J Biol Macromol 2023; 236:123940. [PMID: 36894063 DOI: 10.1016/j.ijbiomac.2023.123940] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2023] [Revised: 02/18/2023] [Accepted: 03/02/2023] [Indexed: 03/09/2023]
Abstract
Lignin is an essential metabolite for plant growth but negatively affects the quality of forage barley. Genetic modification of quality traits to improve the forage digestibility requires an understanding of the molecular mechanism of lignin biosynthesis. RNA-Seq was used to quantify transcripts differentially expressed among leaf, stem and spike tissues from two barley genotypes. A total of 13,172 differentially expressed genes (DEGs) were identified, of which much more up-regulated DEGs were detected from the contrasting groups of leaf vs spike (L-S) and stem vs spike (S-S), and down-regulated DEGs were dominant in the group of stem vs leaf (S-L). 47 DEGs were successfully annotated to the monolignol pathway and six of them were candidate genes regulating the lignin biosynthesis. The qRT-PCR assay verified the expression profiles of the six candidate genes. Among them, four genes might positively regulate the lignin biosynthesis during forage barley development in terms of the consistency of their expression levels and changes of lignin content among the tissues, while the other two genes may have the reverse effects. These findings provide target genes for further investigations on molecular regulatory mechanisms of lignin biosynthesis and genetic resources for improvement of forage quality in barley molecular breeding programme.
Collapse
|
10
|
Genome-Wide Identification and Expression Analysis of the CAD Gene Family in Walnut (Juglans regia L.). Biochem Genet 2022; 61:1065-1085. [DOI: 10.1007/s10528-022-10303-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2022] [Accepted: 11/08/2022] [Indexed: 11/25/2022]
|
11
|
Xiujun W, Zhenqi S, Yujing T, Kaifeng M, Qingwei L. Comparative transcriptome analysis linked to key volatiles reveals molecular mechanisms of aroma compound biosynthesis in Prunus mume. BMC PLANT BIOLOGY 2022; 22:395. [PMID: 35945501 PMCID: PMC9361687 DOI: 10.1186/s12870-022-03779-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 07/27/2022] [Indexed: 05/30/2023]
Abstract
BACKGROUND Mei (Prunus mume) is the only woody plant in the genus Prunus with a floral fragrance, but the underlying mechanisms of aroma compound biosynthesis are unclear despite being a matter of considerable interest. RESULTS The volatile contents of the petals of two cultivars with significantly different aromas, Prunus mume 'Xiao Lve' and Prunus mume 'Xiangxue Gongfen', were characterised by GC-MS at different flowering periods, and a total of 44 volatile compounds were detected. Among these, the main substances forming the typical aroma of P. mume were identified as eugenol, cinnamyl acetate, hexyl acetate and benzyl acetate, with variations in their relative concentrations leading to sensory differences in the aroma of the two cultivars. We compiled a transcriptome database at key stages of floral fragrance formation in the two cultivars and used it in combination with differential analysis of floral volatiles to construct a regulatory network for the biosynthesis of key aroma compounds. The results indicated that PmPAL enzymes and PmMYB4 transcription factors play important roles in regulating the accumulation of key biosynthetic precursors to these compounds. Cytochrome P450s and short-chain dehydrogenases/reductases might also influence the biosynthesis of benzyl acetate by regulating production of key precursors such as benzaldehyde and benzyl alcohol. Furthermore, by analogy to genes with verified functions in Arabidopsis, we predicted that three PmCAD genes, two 4CL genes, three CCR genes and two IGS genes all make important contributions to the synthesis of cinnamyl acetate and eugenol in P. mume. This analysis also suggested that the downstream genes PmBGLU18-like, PmUGT71A16 and PmUGT73C6 participate in regulation of the matrix-bound and volatile states of P. mume aroma compounds. CONCLUSIONS These findings present potential new anchor points for further exploration of floral aroma compound biosynthesis pathways in P. mume, and provide new insights into aroma induction and regulation mechanisms in woody plants.
Collapse
Affiliation(s)
- Wang Xiujun
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, School of Landscape Architecture, Beijing Forestry University, Beijing, China
| | - Song Zhenqi
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, School of Landscape Architecture, Beijing Forestry University, Beijing, China
| | - Ti Yujing
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, School of Landscape Architecture, Beijing Forestry University, Beijing, China
| | - Ma Kaifeng
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, School of Landscape Architecture, Beijing Forestry University, Beijing, China
| | - Li Qingwei
- Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, National Engineering Research Center for Floriculture, School of Landscape Architecture, Beijing Forestry University, Beijing, China.
| |
Collapse
|
12
|
Genome-wide analysis of the CAD gene family reveals two bona fide CAD genes in oil palm. 3 Biotech 2022; 12:149. [PMID: 35747504 PMCID: PMC9209623 DOI: 10.1007/s13205-022-03208-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2022] [Accepted: 05/21/2022] [Indexed: 11/01/2022] Open
Abstract
Cinnamyl alcohol dehydrogenase (CAD) is the key enzyme for lignin biosynthesis in plants. In this study, genome-wide analysis was performed to identify CAD genes in oil palm (Elaeis guineensis). Phylogenetic analysis was then conducted to select the bona fide EgCADs. The bona fide EgCAD genes and their respective 5' flanking regions were cloned and analysed. Their expression profiles were evaluated in various organs using RT-PCR. Seven EgCAD genes (EgCAD1-7) were identified and divided into four phylogenetic groups. EgCAD1 and EgCAD2 display high sequence similarities with other bona fide CADs and possess all the signature motifs of the bona fide CAD. They also display similar 3D protein structures. Gene expression analysis showed that EgCAD1 was expressed most abundantly in the root tissues, while EgCAD2 was expressed constitutively in all the tissues studied. EgCAD1 possesses only one transcription start site, while EgCAD2 has five. Interestingly, a TC microsatellite was found in the 5' flanking region of EgCAD2. The 5' flanking regions of EgCAD1 and EgCAD2 contain lignin-associated regulatory elements i.e. AC-elements, and other defence-related motifs, including W-box, GT-1 motif and CGTCA-motif. Altogether, these results imply that EgCAD1 and EgCAD2 are bona fide CAD involved in lignin biosynthesis during the normal development of oil palm and in response to stresses. Our findings shed some light on the roles of the bona fide CAD genes in oil palm and pave the way for manipulating lignin content in oil palm through a genetic approach. Supplementary Information The online version contains supplementary material available at 10.1007/s13205-022-03208-0.
Collapse
|
13
|
Geng X, Gao Z, Zhao L, Zhang S, Wu J, Yang Q, Liu S, Chen X. Comparative transcriptome analysis of resistant and susceptible wheat in response to Rhizoctonia cerealis. BMC PLANT BIOLOGY 2022; 22:235. [PMID: 35534832 PMCID: PMC9087934 DOI: 10.1186/s12870-022-03584-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Accepted: 04/07/2022] [Indexed: 06/14/2023]
Abstract
BACKGROUND Sheath blight is an important disease caused by Rhizoctonia cerealis that affects wheat yields worldwide. No wheat varieties have been identified with high resistance or immunity to sheath blight. Understanding the sheath blight resistance mechanism is essential for controlling this disease. In this study, we investigated the response of wheat to Rhizoctonia cerealis infection by analyzing the cytological changes and transcriptomes of common wheat 7182 with moderate sensitivity to sheath blight and H83 with moderate resistance. RESULTS The cytological observation showed that the growth of Rhizoctonia cerealis on the surface and its expansion inside the leaf sheath tissue were more rapid in the susceptible material. According to the transcriptome sequencing results, a total of 88685 genes were identified in both materials, including 20156 differentially expressed genes (DEGs) of which 12087 was upregulated genes and 8069 was downregulated genes. At 36 h post-inoculation, compared with the uninfected control, 11498 DEGs were identified in resistant materials, with 5064 downregulated genes and 6434 upregulated genes, and 13058 genes were detected in susceptible materials, with 6759 downregulated genes and 6299 upregulated genes. At 72 h post-inoculation, compared with the uninfected control, 6578 DEGs were detected in resistant materials, with 2991 downregulated genes and 3587 upregulated genes, and 7324 genes were detected in susceptible materials, with 4119 downregulated genes and 3205 upregulated genes. Functional annotation and enrichment analysis showed that the main pathways enriched for the DEGs included biosynthesis of secondary metabolites, carbon metabolism, plant hormone signal transduction, and plant-pathogen interaction. In particular, phenylpropane biosynthesis pathway is specifically activated in resistant variety H83 after infection. Many DEGs also belonged to the MYB, AP2, NAC, and WRKY transcription factor families. CONCLUSIONS Thus, we suggest that the normal functioning of plant signaling pathways and differences in the expression of key genes and transcription factors in some important metabolic pathways may be important for defending wheat against sheath blight. These findings may facilitate further exploration of the sheath blight resistance mechanism in wheat and the cloning of related genes.
Collapse
Affiliation(s)
- Xingxia Geng
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Zhen Gao
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Li Zhao
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Shufa Zhang
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Jun Wu
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Qunhui Yang
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Shuhui Liu
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China
| | - Xinhong Chen
- Shaanxi Key Laboratory of Genetic Engineering for Plant Breeding, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China.
| |
Collapse
|
14
|
Zhang T, Bao F, Ding A, Yang Y, Cheng T, Wang J, Zhang Q. Comprehensive Analysis of Endogenous Volatile Compounds, Transcriptome, and Enzyme Activity Reveals PmCAD1 Involved in Cinnamyl Alcohol Synthesis in Prunus mume. FRONTIERS IN PLANT SCIENCE 2022; 13:820742. [PMID: 35251090 PMCID: PMC8894765 DOI: 10.3389/fpls.2022.820742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Accepted: 01/20/2022] [Indexed: 06/14/2023]
Abstract
Floral scent is an important economic and ornamental trait of Prunus mume. The floral volatiles from most cultivars of P. mume in composition exist significant differences. Cinnamyl alcohol was one of the main floral volatile compounds with distinct abundances in different cultivars, namely, 'Zaohua Lve,' 'Zao Yudie,' 'Fenpi Gongfen,' 'Jiangsha Gongfen,' and 'Fenhong Zhusha.' Based on the determination of endogenous volatiles of full-blooming flowers, vital enzyme activity and transcriptomes were comprehensively analyzed to screen the key potential genes involved in cinnamyl alcohol synthesis. Transcriptome combining with enzyme activity level analysis suggested that the expression levels of three PmCADs were highly correlated with the cinnamyl alcohol dehydrogenase (CAD) enzyme activities in six cultivars. Furthermore, phylogenetic tree and transcriptome analysis suggested that PmCAD1 and PmCAD2 might contribute to the cinnamyl alcohol synthesis. Relative expression analyses and enzyme activity assays showed that PmCAD1 played an important role in cinnamyl alcohol biosynthesis in vitro. Overall, this research lays a theoretical foundation for clarifying comprehensively the molecular biosynthesis mechanism of floral volatiles in P. mume.
Collapse
|
15
|
Singh S, Sharma N, Malannavar AB, Badiyal A, Sharma PN. Cloning and in silico characterization of cinnamyl alcohol dehydrogenase gene involved in lignification of Tall fescue (Festuca arundinacea Schreb.). Mol Genet Genomics 2022; 297:437-447. [PMID: 35119503 DOI: 10.1007/s00438-022-01858-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 01/05/2022] [Indexed: 10/19/2022]
Abstract
Tall fescue, a promising temperate forage grass of Himalayan region, possesses extraordinary property of rapid growth with high biomass production, but its poor digestibility due to higher lignin content limits its utilization in livestock feeding. The lignification in Tall fescue is under the control of enzymatic cascade of different regulatory enzymes. Cinnamyl alcohol dehydrogenase (CAD) is a crucial regulatory enzyme that catalyzes the last step of monolignol biosynthesis and is a potential candidate for altering the content and types of lignin, and hence increasing the digestibility of fodder crops. Hence, the present investigation was conducted on isolation, cloning and characterization of CAD gene from Tall fescue. Isolation and amplification of CAD gene resulted in an amplicon of 1521 bp. The CAD gene sequence was submitted to NCBI database with an accession number MW442831. Translation of the CAD gene sequence exhibited an ORF of 361 amino acids. The deduced CAD protein was predicted to be hydrophobic, acidic and thermally stable with molecular formula C1712H2734N460O520S23, molecular mass of 38.82 kDa, theoretical pI of 5.60 and 3 strong transmembrane helices. The CAD protein was predicted to have a dimer forming behavior with putative NAD(P) binding site between amino acids 48 and 301, putative substrate-binding site between amino acids 48 and 301, catalytic zinc-binding site between amino acids 48 and 164 and structural zinc-binding site between amino acid residue 101 and 115. A conserved 189GLGGVG194 motif is the binding site for NADP(H). The conserved motif pattern of CAD's zinc catalytic center was found to be 69GHEVVGEV(X)EVG(X)2V83. The zinc-binding site was found to be conserved between amino acid 89 and 115 and was found to be 89G(X)2VG(X)G(X)2VGXC(X)2C(X)2C(X)5QYC115. The deciphered sequence and putative protein information might be useful in subsequent research in lignin bioengineering for enhanced digestibility, biomass conversion as well as impact of lignin on cell wall mechanics.
Collapse
Affiliation(s)
- Siddhartha Singh
- Department of Chemistry and Biochemistry, College of Basic Sciences, CSK HPKV, Palampur, Himachal Pradesh, India. .,Department of Basic Sciences, College of Horticulture and Forestry, Central Agricultural University, Pasighat, Arunachal Pradesh, India.
| | - Neelam Sharma
- Department of Chemistry and Biochemistry, College of Basic Sciences, CSK HPKV, Palampur, Himachal Pradesh, India
| | - Anudeep B Malannavar
- Department of Plant Pathology, College of Agriculture, CSK HPKV, Palampur, Himachal Pradesh, India
| | - Anila Badiyal
- Department of Plant Pathology, College of Agriculture, CSK HPKV, Palampur, Himachal Pradesh, India
| | - Prem Nath Sharma
- Department of Plant Pathology, College of Agriculture, CSK HPKV, Palampur, Himachal Pradesh, India
| |
Collapse
|
16
|
Hu Y, Javed HH, Asghar MA, Peng X, Brestic M, Skalický M, Ghafoor AZ, Cheema HN, Zhang FF, Wu YC. Enhancement of Lodging Resistance and Lignin Content by Application of Organic Carbon and Silicon Fertilization in Brassica napus L. FRONTIERS IN PLANT SCIENCE 2022; 13:807048. [PMID: 35251081 PMCID: PMC8891806 DOI: 10.3389/fpls.2022.807048] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 01/19/2022] [Indexed: 05/04/2023]
Abstract
This study was aimed to investigate the effects of organic carbon and silicon fertilizers on the lodging resistance, yield, and economic performance of rapeseed. Two cultivars, namely Jayou (lodging-resistant) and Chuannongyou (lodging-susceptible), were selected to evaluate the effects of various fertilizer treatments on rapeseed culm morphology, lignin accumulation, and their relationships with their lodging resistance indices. The results showed that both organic carbon and silicon fertilizer applications increased the plant height, basal stem diameter, internode plumpness, and bending strength of rapeseed in both the studied years. The bending strength was significantly and positively correlated with the lodging resistance index and lignin content. It was found that both organic carbon and silicon fertilizers had improved the activities of lignin biosynthesis enzymes (phenylalanine ammonia-lyase, 4-coumarate:CoA ligase, cinnamyl alcohol dehydrogenase, and peroxiredoxins) and their related genes to increase lignin accumulation in the culm, which ultimately improved the lodging resistance. At the same time, the thickness of the stem cortex, vascular bundle area, and xylem area was increased, and the stem strength was improved. The effect of silicon fertilizer was better than that of organic carbon fertilizer, but there was no significant difference with the mixed application of silicon fertilizer and organic carbon fertilizer. Similarly, silicon fertilizer increased the number of pods, significantly increased the yield, and improved the economic benefit, while organic carbon fertilizer had no significant effect on the yield. Therefore, we believe that organic carbon and silicon fertilizer can improve the lodging resistance of rape stems by improving the lignin accumulation and the mechanical tissue structure. Still, the effect of silicon fertilizer is the best. Considering the economic benefits, adding silicon fertilizer can obtain more net income than the mixed application of silicon fertilizer and organic carbon fertilizer.
Collapse
Affiliation(s)
- Yue Hu
- College of Agronomy, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
| | - Hafiz Hassan Javed
- College of Agronomy, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
| | - Muhammad Ahsan Asghar
- Department of Biological Resources, Agricultural Institute, Centre for Agricultural Research, ELKH, Martonvásár, Hungary
| | - Xiao Peng
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
| | - Marian Brestic
- Department of Plant Physiology, Slovak University of Agriculture, Nitra, Slovakia
| | - Milan Skalický
- Department of Botany and Plant Physiology, Czech University of Life Sciences, Prague, Czechia
| | - Abu Zar Ghafoor
- College of Agronomy, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
| | | | - Fang-Fang Zhang
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
| | - Yong-Cheng Wu
- College of Agronomy, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Ecophysiology and Farming System in Southwest China, Chengdu, China
- *Correspondence: Yong-Cheng Wu,
| |
Collapse
|
17
|
Vasupalli N, Hou D, Singh RM, Wei H, Zou LH, Yrjälä K, Wu A, Lin X. Homo- and Hetero-Dimers of CAD Enzymes Regulate Lignification and Abiotic Stress Response in Moso Bamboo. Int J Mol Sci 2021; 22:ijms222312917. [PMID: 34884720 PMCID: PMC8657895 DOI: 10.3390/ijms222312917] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2021] [Revised: 11/21/2021] [Accepted: 11/26/2021] [Indexed: 11/16/2022] Open
Abstract
Lignin biosynthesis enzymes form complexes for metabolic channelling during lignification and these enzymes also play an essential role in biotic and abiotic stress response. Cinnamyl alcohol dehydrogenase (CAD) is a vital enzyme that catalyses the reduction of aldehydes to alcohols, which is the final step in the lignin biosynthesis pathway. In the present study, we identified 49 CAD enzymes in five Bambusoideae species and analysed their phylogenetic relationships and conserved domains. Expression analysis of Moso bamboo PheCAD genes in several developmental tissues and stages revealed that among the PheCAD genes, PheCAD2 has the highest expression level and is expressed in many tissues and PheCAD1, PheCAD6, PheCAD8 and PheCAD12 were also expressed in most of the tissues studied. Co-expression analysis identified that the PheCAD2 positively correlates with most lignin biosynthesis enzymes, indicating that PheCAD2 might be the key enzyme involved in lignin biosynthesis. Further, more than 35% of the co-expressed genes with PheCADs were involved in biotic or abiotic stress responses. Abiotic stress transcriptomic data (SA, ABA, drought, and salt) analysis identified that PheCAD2, PheCAD3 and PheCAD5 genes were highly upregulated, confirming their involvement in abiotic stress response. Through yeast two-hybrid analysis, we found that PheCAD1, PheCAD2 and PheCAD8 form homo-dimers. Interestingly, BiFC and pull-down experiments identified that these enzymes form both homo- and hetero- dimers. These data suggest that PheCAD genes are involved in abiotic stress response and PheCAD2 might be a key lignin biosynthesis pathway enzyme. Moreover, this is the first report to show that three PheCAD enzymes form complexes and that the formation of PheCAD homo- and hetero- dimers might be tissue specific.
Collapse
Affiliation(s)
- Naresh Vasupalli
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
| | - Dan Hou
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
| | - Rahul Mohan Singh
- Shanghai Center for Plant Stress Biology, CAS Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China;
| | - Hantian Wei
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
| | - Long-Hai Zou
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
| | - Kim Yrjälä
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
- Department of Forest Sciences, University of Helsinki, 00014 Helsinki, Finland
| | - Aimin Wu
- Guangdong Key Laboratory for Innovative Development and Utilisation of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou 510642, China;
- State Key Laboratory for Conservation and Utilisation of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China
| | - Xinchun Lin
- State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Hangzhou 311300, China; (N.V.); (D.H.); (H.W.); (L.-H.Z.); (K.Y.)
- Correspondence: ; Tel.: +86-18958162317
| |
Collapse
|
18
|
Konovalov AA, Karpova EV, Shundrina IK, Razmakhnin EP, Eltsov IV, Goncharov NP. Effect of Allelic Variants of Aromatic Alcohol Dehydrogenase CADim on Micromorphological and Chemical Tissue Indices in the Spring Bread Wheat Triticum aestivum L. APPL BIOCHEM MICRO+ 2021. [DOI: 10.1134/s0003683821040086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
19
|
Zheng Y, Hou P, Zhu L, Song W, Liu H, Huang Y, Wang H, Guo J. Genome-Wide Association Study of Vascular Bundle-Related Traits in Maize Stalk. FRONTIERS IN PLANT SCIENCE 2021; 12:699486. [PMID: 34504506 PMCID: PMC8423097 DOI: 10.3389/fpls.2021.699486] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 06/18/2021] [Indexed: 06/13/2023]
Abstract
The vascular bundle plays an important role in nutrient transportation in plants and exerts great influence on crop yield. Maize is widely used for food, feed, and fuel, producing the largest yield in the world. However, genes and molecular mechanism controlling vascular bundle-related traits in maize have largely remained undiscovered. In this study, a natural population containing 248 diverse maize inbred lines genotyped with high-throughput SNP markers was used for genome-wide association study. The results showed that broad variations existed for the vascular bundle-related traits which are subject to genetic structure and it was suitable for association analysis. In this study, we identified 15, 13, 2, 1, and 5 SNPs significantly associated with number of small vascular bundle, number of large vascular bundle, average area of single small vascular bundle, average area of single large vascular bundle, and cross-sectional area, respectively. The 210 candidate genes in the confidence interval can be classified into ten biological processes, three cellular components, and eight molecular functions. As for the Kyoto Encyclopedia of Genes and Genomes analysis of the candidate genes, a total of six pathways were identified. Finally, we found five genes related to vascular development, three genes related to cell wall, and two genes related to the mechanical strength of the stalk. Our results provide the further understanding of the genetic foundation of vascular bundle-related traits in maize stalk.
Collapse
Affiliation(s)
- Yunxiao Zheng
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Sub-center for National Maize Improvement Center, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Peng Hou
- Key Laboratory of Crop Physiology and Ecology, Ministry of Agriculture and Rural Affairs, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Liying Zhu
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Sub-center for National Maize Improvement Center, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Weibin Song
- State Key Laboratory of Agrobiotechnology, National Maize Improvement Center, Department of Plant Genetics and Breeding, China Agricultural University, Beijing, China
| | - Han Liu
- State Key Laboratory of Agrobiotechnology, National Maize Improvement Center, Department of Plant Genetics and Breeding, China Agricultural University, Beijing, China
- Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Yaqun Huang
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Sub-center for National Maize Improvement Center, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Hong Wang
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Sub-center for National Maize Improvement Center, College of Agronomy, Hebei Agricultural University, Baoding, China
| | - Jinjie Guo
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Sub-center for National Maize Improvement Center, College of Agronomy, Hebei Agricultural University, Baoding, China
| |
Collapse
|
20
|
Chen C, Chang J, Wang S, Lu J, Liu Y, Si H, Sun G, Ma C. Cloning, expression analysis and molecular marker development of cinnamyl alcohol dehydrogenase gene in common wheat. PROTOPLASMA 2021; 258:881-889. [PMID: 33443712 DOI: 10.1007/s00709-021-01607-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Accepted: 01/04/2021] [Indexed: 05/27/2023]
Abstract
In common wheat, stem strength is one of the key factors for lodging resistance, which is influenced by lignin content. Cinnamyl alcohol dehydrogenase (CAD) is a vital enzyme in the pathway of lignin biosynthesis. Cloning and marker development of the CAD gene could be helpful for lodging resistance breeding. In this study, the full-length genomic DNA sequence of CAD gene in wheat was cloned by using homologous strategy. A marker 5-f2r2 was developed based on CAD sequence and used to genotype 258 wheat lines. Four haplotype combinations of CAD genes were identified in 258 wheat lines. Correction analyses among the CAD gene expression, CAD activity, and stem strength indicated significant positive correlation between CAD gene expression and CAD activity, between wheat CAD activity and wheat stem strength. The haplotype combination B is significantly associated with the lower enzyme activity and weak stem strength, which was supported by the level of CAD gene expression. The CAD activity and stem strength of wheat could be distinguished to some extent using this pair of specific primer 5-f2r2 designed in this study, indicating that the sequence targeted site (STS) marker 5-f2r2 could be used in marker assistant selection (MAS) breeding.
Collapse
Affiliation(s)
- Can Chen
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Jingming Chang
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Sheng Wang
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Jie Lu
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Yi Liu
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China
| | - Hongqi Si
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China.
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China.
| | - Genlou Sun
- Biology Department, Saint Mary's University, Halifax, NS, B3H 3C3, Canada.
| | - Chuanxi Ma
- School of Agronomy, Anhui Agricultural University, Hefei, 230036, China.
- Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, Hefei, 230036, China.
- National United Engineering Laboratory for Crop Stress Resistance Breeding, Hefei, 230036, China.
- Anhui Key Laboratory of Crop Biology, Hefei, 230036, China.
| |
Collapse
|
21
|
Caliandro R, Polsinelli I, Demitri N, Musiani F, Martens S, Benini S. The structural and functional characterization of Malus domestica double bond reductase MdDBR provides insights towards the identification of its substrates. Int J Biol Macromol 2021; 171:89-99. [PMID: 33412202 DOI: 10.1016/j.ijbiomac.2020.12.190] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 12/24/2020] [Indexed: 10/22/2022]
Abstract
In this study we describe the crystal structures of the apoform, the binary and the ternary complexes of a double bond reductase from Malus domestica L. (MdDBR) and explore a range of potential substrates. The overall fold of MdDBR is similar to that of the medium chain reductase/dehydrogenase/zinc-dependent alcohol dehydrogenase-like family. Structural comparison of MdDBR with Arabidopsis thaliana DBR (AtDBR), Nicotiana tabacum DBR (NtDBR) and Rubus idaeus DBR (RiDBR) allowed the identification of key amino acids involved in cofactor and ligands binding and shed light on how these residues may guide the orientation of the substrates. The enzyme kinetic for the substrate trans-4-phenylbuten-2-one has been analyzed, and MdDBR activity towards a variety of substrates was tested. This enzyme has been reported to be involved in the phenylpropanoid pathway where it would catalyze the NADPH-dependent reduction of the α, β-unsaturated double bond of carbonyl metabolites. Our study provides new data towards the identification of MdDBR natural substrate and the biosynthetic pathway where it belongs. Furthermore, the originally proposed involvement in dihydrochalcone biosynthesis in apple must be questioned.
Collapse
Affiliation(s)
- Rosanna Caliandro
- Bioorganic Chemistry and Bio-Crystallography laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, 39100 Bolzano, Italy
| | - Ivan Polsinelli
- Bioorganic Chemistry and Bio-Crystallography laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, 39100 Bolzano, Italy
| | - Nicola Demitri
- Elettra-Sincrotrone Trieste, S.S. 14 Km 163.5 in Area Science Park, Basovizza, Trieste 34149, Italy
| | - Francesco Musiani
- Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, Via Giuseppe Fanin 40, 40127 Bologna, Italy
| | - Stefan Martens
- Department of Food Quality and Nutrition, Centro Ricerca e Innovazione, Fondazione Edmund Mach, Via E. Mach 1, 38010 San Michele all'Adige, Trentino, Italy
| | - Stefano Benini
- Bioorganic Chemistry and Bio-Crystallography laboratory (B(2)Cl), Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, 39100 Bolzano, Italy.
| |
Collapse
|
22
|
Genome-wide analysis of general phenylpropanoid and monolignol-specific metabolism genes in sugarcane. Funct Integr Genomics 2021; 21:73-99. [PMID: 33404914 DOI: 10.1007/s10142-020-00762-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Revised: 11/23/2020] [Accepted: 11/27/2020] [Indexed: 10/22/2022]
Abstract
Lignin is the main component of secondary cell walls and is essential for plant development and defense. However, lignin is recognized as a major recalcitrant factor for efficiency of industrial biomass processing. Genes involved in general phenylpropanoid and monolignol-specific metabolism in sugarcane have been previously analyzed at the transcriptomic level. Nevertheless, the number of genes identified in this species is still very low. The recently released sugarcane genome sequence has allowed the genome-wide characterization of the 11 gene families involved in the monolignol biosynthesis branch of the phenylpropanoid pathway. After an exhaustive analysis of sugarcane genomes, 438 haplotypes derived from 175 candidate genes from Saccharum spontaneum and 144 from Saccharum hybrid R570 were identified as associated with this biosynthetic route. The phylogenetic analyses, combined with the search for protein conserved residues involved in the catalytic activity of the encoded enzymes, were employed to identify the family members potentially involved in developmental lignification. Accordingly, 15 candidates were identified as bona fide lignin biosynthesis genes: PTAL1, PAL2, C4H4, 4CL1, HCT1, HCT2, C3'H1, C3'H2, CCoAOMT1, COMT1, F5H1, CCR1, CCR2, CAD2, and CAD7. For this core set of lignin biosynthetic genes, we searched for the chromosomal location, the gene expression pattern, the promoter cis-acting elements, and microRNA targets. Altogether, our results present a comprehensive characterization of sugarcane general phenylpropanoid and monolignol-specific genes, providing the basis for further functional studies focusing on lignin biosynthesis manipulation and biotechnological strategies to improve sugarcane biomass utilization.
Collapse
|
23
|
Yu M, Wang M, Gyalpo T, Basang Y. Stem lodging resistance in hulless barley: Transcriptome and metabolome analysis of lignin biosynthesis pathways in contrasting genotypes. Genomics 2020; 113:935-943. [PMID: 33127582 DOI: 10.1016/j.ygeno.2020.10.027] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2020] [Revised: 09/28/2020] [Accepted: 10/25/2020] [Indexed: 01/15/2023]
Abstract
Hulless barley is an important economic and food crop for local population in the Qinghai-Tibet plateau. However, due to extreme weather conditions, its production suffers from stem lodging stress, inflicting significant yield losses. Herein, we selected five lodging resistant and five non-resistant genotypes to investigate changes in concentration of lignin related metabolites and expression levels of related genes in node samples. The lodging resistant genotypes displayed high content of lignin intermediate metabolites. 57% of the expressed genes were differentially expressed (DEG) between the two groups. 31 DEGs participate in the lignin pathways and we found that 65% of these DEGs were strongly up-regulated in the lodging resistant group, indicating a mechanism towards high lignin synthesis within said group. The candidate structural genes as well as the co-expressed TFs identified in this study represent important molecular tools for functional characterization and exploitation in molecular breeding programmes.
Collapse
Affiliation(s)
- Mingzhai Yu
- State Key Laboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Tibet, China; Tibet Academy of Agriculture and Animal Husbandry Sciences, Lhasa, China
| | - Mu Wang
- State Key Laboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Tibet, China; Tibet Academy of Agriculture and Animal Husbandry Sciences, Lhasa, China
| | - Thondup Gyalpo
- State Key Laboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Tibet, China; Tibet Academy of Agriculture and Animal Husbandry Sciences, Lhasa, China
| | - Yuzhen Basang
- State Key Laboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa, Tibet, China; Tibet Academy of Agriculture and Animal Husbandry Sciences, Lhasa, China.
| |
Collapse
|
24
|
Weiller F, Gerber L, Trygg J, Fangel JU, Willats WG, Driouich A, Vivier MA, Moore JP. Overexpression of VviPGIP1 and NtCAD14 in Tobacco Screened Using Glycan Microarrays Reveals Cell Wall Reorganisation in the Absence of Fungal Infection. Vaccines (Basel) 2020; 8:E388. [PMID: 32679889 PMCID: PMC7565493 DOI: 10.3390/vaccines8030388] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 07/13/2020] [Accepted: 07/14/2020] [Indexed: 01/07/2023] Open
Abstract
The expression of Vitis vinifera polygalacturonase inhibiting protein 1 (VviPGIP1) in Nicotiana tabacum has been linked to modifications at the cell wall level. Previous investigations have shown an upregulation of the lignin biosynthesis pathway and reorganisation of arabinoxyloglucan composition. This suggests cell wall tightening occurs, which may be linked to defence priming responses. The present study used a screening approach to test four VviPGIP1 and four NtCAD14 overexpressing transgenic lines for cell wall alterations. Overexpressing the tobacco-derived cinnamyl alcohol dehydrogenase (NtCAD14) gene is known to increase lignin biosynthesis and deposition. These lines, particularly PGIP1 expressing plants, have been shown to lead to a decrease in susceptibility towards grey rot fungus Botrytis cinerea. In this study the aim was to investigate the cell wall modulations that occurred prior to infection, which should highlight potential priming phenomena and phenotypes. Leaf lignin composition and relative concentration of constituent monolignols were evaluated using pyrolysis gas chromatography. Significant concentrations of lignin were deposited in the stems but not the leaves of NtCAD14 overexpressing plants. Furthermore, no significant changes in monolignol composition were found between transgenic and wild type plants. The polysaccharide modifications were quantified using gas chromatography (GC-MS) of constituent monosaccharides. The major leaf polysaccharide and cell wall protein components were evaluated using comprehensive microarray polymer profiling (CoMPP). The most significant changes appeared at the polysaccharide and protein level. The pectin fraction of the transgenic lines had subtle variations in patterning for methylesterification epitopes for both VviPGIP1 and NtCAD14 transgenic lines versus wild type. Pectin esterification levels have been linked to pathogen defence in the past. The most marked changes occurred in glycoprotein abundance for both the VviPGIP1 and NtCAD14 lines. Epitopes for arabinogalactan proteins (AGPs) and extensins were notably altered in transgenic NtCAD14 tobacco.
Collapse
Affiliation(s)
- Florent Weiller
- South African Grape and Wine Research Institute, Department of Viticulture and Oenology, Stellenbosch University, Stellenbosch 7602, South Africa; (F.W.); (M.A.V.)
| | - Lorenz Gerber
- Department of Plant Sciences, Swedish Agricultural University, 75007 Uppsala, Sweden;
| | - Johan Trygg
- Computational Life Science Cluster, Department of Chemistry, University of Umeå, 901 87 Umea, Sweden;
| | - Jonatan U. Fangel
- Department of Plant and Environmental Sciences, University of Copenhagen, 1165 Copenhagen, Denmark;
| | - William G.T. Willats
- School of Agriculture, Food and Rural Development, Newcastle University, Newcastle-upon-Tyne NE1 7RU, UK;
| | - Azeddine Driouich
- Laboratoire de Glycobiologie et Matrice Extracellulaire Végétale (GlycoMEV), University of Rouen, 76821 Mont Saint Aignan, France;
| | - Melané A. Vivier
- South African Grape and Wine Research Institute, Department of Viticulture and Oenology, Stellenbosch University, Stellenbosch 7602, South Africa; (F.W.); (M.A.V.)
| | - John P. Moore
- South African Grape and Wine Research Institute, Department of Viticulture and Oenology, Stellenbosch University, Stellenbosch 7602, South Africa; (F.W.); (M.A.V.)
| |
Collapse
|
25
|
Drouet S, Tungmunnithum D, Lainé É, Hano C. Gene Expression Analysis and Metabolite Profiling of Silymarin Biosynthesis during Milk Thistle ( Silybum marianum (L.) Gaertn.) Fruit Ripening. Int J Mol Sci 2020; 21:E4730. [PMID: 32630801 PMCID: PMC7370286 DOI: 10.3390/ijms21134730] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2020] [Revised: 06/29/2020] [Accepted: 06/29/2020] [Indexed: 02/06/2023] Open
Abstract
Mature fruits (i.e., achenes) of milk thistle (Silybum marianum (L.) Gaertn., Asteraceae) accumulate high amounts of silymarin (SILM), a complex mixture of bioactive flavonolignans deriving from taxifolin. Their biological activities in relation with human health promotion and disease prevention are well described. However, the conditions of their biosynthesis in planta are still obscure. To fill this gap, fruit development stages were first precisely defined to study the accumulation kinetics of SILM constituents during fruit ripening. The accumulation profiles of the SILM components during fruit maturation were determined using the LC-MS analysis of these defined developmental phases. The kinetics of phenylalanine ammonia-lyase (PAL), chalcone synthase (CHS) and peroxidase (POX) activities suggest in situ biosynthesis of SILM from l-Phenylalanine during fruit maturation rather than a transport of precursors to the achene. In particular, in contrast to laccase activity, POX activity was associated with the accumulation of silymarin, thus indicating a possible preferential involvement of peroxidase(s) in the oxidative coupling step leading to flavonolignans. Reference genes have been identified, selected and validated to allow accurate gene expression profiling of candidate biosynthetic genes (PAL, CAD, CHS, F3H, F3'H and POX) related to SILM accumulation. Gene expression profiles were correlated with SILM accumulation kinetic and preferential location in pericarp during S. marianum fruit maturation, reaching maximum biosynthesis when desiccation occurs, thus reinforcing the hypothesis of an in situ biosynthesis. This observation led us to consider the involvement of abscisic acid (ABA), a key phytohormone in the control of fruit ripening process. ABA accumulation timing and location during milk thistle fruit ripening appeared in line with a potential regulation of the SLIM accumulation. A possible transcriptional regulation of SILM biosynthesis by ABA was supported by the presence of ABA-responsive cis-acting elements in the promoter regions of the SILM biosynthetic genes studied. These results pave the way for a better understanding of the biosynthetic regulation of SILM during the maturation of S. marianum fruit and offer important insights to better control the production of these medicinally important compounds.
Collapse
Affiliation(s)
- Samantha Drouet
- Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), INRAE USC1328, University of Orleans, 21 rue de Loigny la Bataille, F-28000 Chartres, France; (S.D.); (D.T.); (É.L.)
- Bioactifs et Cosmétiques, CNRS GDR3711, CEDEX 2, 45067 Orléans, France
| | - Duangjai Tungmunnithum
- Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), INRAE USC1328, University of Orleans, 21 rue de Loigny la Bataille, F-28000 Chartres, France; (S.D.); (D.T.); (É.L.)
- Bioactifs et Cosmétiques, CNRS GDR3711, CEDEX 2, 45067 Orléans, France
- Department of Pharmaceutical Botany, Faculty of Pharmacy, Mahidol University, 447 Sri-Ayuthaya Road, Rajathevi, Bangkok 10400, Thailand
| | - Éric Lainé
- Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), INRAE USC1328, University of Orleans, 21 rue de Loigny la Bataille, F-28000 Chartres, France; (S.D.); (D.T.); (É.L.)
- Bioactifs et Cosmétiques, CNRS GDR3711, CEDEX 2, 45067 Orléans, France
| | - Christophe Hano
- Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), INRAE USC1328, University of Orleans, 21 rue de Loigny la Bataille, F-28000 Chartres, France; (S.D.); (D.T.); (É.L.)
- Bioactifs et Cosmétiques, CNRS GDR3711, CEDEX 2, 45067 Orléans, France
| |
Collapse
|
26
|
Jardim-Messeder D, da Franca Silva T, Fonseca JP, Junior JN, Barzilai L, Felix-Cordeiro T, Pereira JC, Rodrigues-Ferreira C, Bastos I, da Silva TC, de Abreu Waldow V, Cassol D, Pereira W, Flausino B, Carniel A, Faria J, Moraes T, Cruz FP, Loh R, Van Montagu M, Loureiro ME, de Souza SR, Mangeon A, Sachetto-Martins G. Identification of genes from the general phenylpropanoid and monolignol-specific metabolism in two sugarcane lignin-contrasting genotypes. Mol Genet Genomics 2020; 295:717-739. [PMID: 32124034 DOI: 10.1007/s00438-020-01653-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2019] [Accepted: 02/12/2020] [Indexed: 11/29/2022]
Abstract
The phenylpropanoid pathway is an important route of secondary metabolism involved in the synthesis of different phenolic compounds such as phenylpropenes, anthocyanins, stilbenoids, flavonoids, and monolignols. The flux toward monolignol biosynthesis through the phenylpropanoid pathway is controlled by specific genes from at least ten families. Lignin polymer is one of the major components of the plant cell wall and is mainly responsible for recalcitrance to saccharification in ethanol production from lignocellulosic biomass. Here, we identified and characterized sugarcane candidate genes from the general phenylpropanoid and monolignol-specific metabolism through a search of the sugarcane EST databases, phylogenetic analysis, a search for conserved amino acid residues important for enzymatic function, and analysis of expression patterns during culm development in two lignin-contrasting genotypes. Of these genes, 15 were cloned and, when available, their loci were identified using the recently released sugarcane genomes from Saccharum hybrid R570 and Saccharum spontaneum cultivars. Our analysis points out that ShPAL1, ShPAL2, ShC4H4, Sh4CL1, ShHCT1, ShC3H1, ShC3H2, ShCCoAOMT1, ShCOMT1, ShF5H1, ShCCR1, ShCAD2, and ShCAD7 are strong candidates to be bona fide lignin biosynthesis genes. Together, the results provide information about the candidate genes involved in monolignol biosynthesis in sugarcane and may provide useful information for further molecular genetic studies in sugarcane.
Collapse
Affiliation(s)
- Douglas Jardim-Messeder
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Tatiane da Franca Silva
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.,Departamento de Biotecnologia, Escola de Engenharia de Lorena, Universidade de São Paulo, Lorena, São Paulo, Brazil
| | - Jose Pedro Fonseca
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - José Nicomedes Junior
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.,Centro de Pesquisa e Desenvolvimento Leopoldo Américo Miguez de Mello, Gerência de Biotecnologia, CENPES, Petrobras, Rio de Janeiro, Brazil
| | - Lucia Barzilai
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Thais Felix-Cordeiro
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Joyce Carvalho Pereira
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Clara Rodrigues-Ferreira
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Isabela Bastos
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Tereza Cristina da Silva
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Vinicius de Abreu Waldow
- Centro de Pesquisa e Desenvolvimento Leopoldo Américo Miguez de Mello, Gerência de Biotecnologia, CENPES, Petrobras, Rio de Janeiro, Brazil
| | - Daniela Cassol
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Willian Pereira
- Departamento de Química, Universidade Federal Rural do Rio de Janeiro, Seropédica, Rio de Janeiro, Brazil
| | - Bruno Flausino
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Adriano Carniel
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.,Centro de Pesquisa e Desenvolvimento Leopoldo Américo Miguez de Mello, Gerência de Biotecnologia, CENPES, Petrobras, Rio de Janeiro, Brazil
| | - Jessica Faria
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Thamirys Moraes
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Fernanda P Cruz
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Roberta Loh
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.,Instituto Federal de Educação, Ciência e Tecnologia do Rio de Janeiro, Rio de Janeiro, Brazil
| | - Marc Van Montagu
- Institute of Plant Biotechnology Outreach, Gent University, Technologiepark 3, Zwijnaarde, 9052, Gent, Belgium
| | - Marcelo Ehlers Loureiro
- Laboratório de Fisiologia Vegetal, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Sonia Regina de Souza
- Departamento de Química, Universidade Federal Rural do Rio de Janeiro, Seropédica, Rio de Janeiro, Brazil
| | - Amanda Mangeon
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.
| | - Gilberto Sachetto-Martins
- Laboratório de Genômica Funcional e Transdução de Sinal, Departamento de Genética, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.
| |
Collapse
|
27
|
Vanillin Production in Pseudomonas: Whole-Genome Sequencing of Pseudomonas sp. Strain 9.1 and Reannotation of Pseudomonas putida CalA as a Vanillin Reductase. Appl Environ Microbiol 2020; 86:AEM.02442-19. [PMID: 31924622 PMCID: PMC7054097 DOI: 10.1128/aem.02442-19] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2019] [Accepted: 12/21/2019] [Indexed: 02/06/2023] Open
Abstract
Microbial degradation of lignin and its related aromatic compounds has great potential for the sustainable production of chemicals and bioremediation of contaminated soils. We previously isolated Pseudomonas sp. strain 9.1 from historical waste deposits (forming so-called fiber banks) released from pulp and paper mills along the Baltic Sea coast. The strain accumulated vanillyl alcohol during growth on vanillin, and while reported in other microbes, this phenotype is less common in wild-type pseudomonads. As the reduction of vanillin to vanillyl alcohol is an undesired trait in Pseudomonas strains engineered to accumulate vanillin, connecting the strain 9.1 phenotype with a genotype would increase the fundamental understanding and genetic engineering potential of microbial vanillin metabolism. The genome of Pseudomonas sp. 9.1 was sequenced and assembled. Annotation identified oxidoreductases with homology to Saccharomyces cerevisiae alcohol dehydrogenase ScADH6p, known to reduce vanillin to vanillyl alcohol, in both the 9.1 genome and the model strain Pseudomonas putida KT2440. Recombinant expression of the Pseudomonas sp. 9.1 FEZ21_09870 and P. putida KT2440 PP_2426 (calA) genes in Escherichia coli revealed that these open reading frames encode aldehyde reductases that convert vanillin to vanillyl alcohol, and that P. putida KT2440 PP_3839 encodes a coniferyl alcohol dehydrogenase that oxidizes coniferyl alcohol to coniferyl aldehyde (i.e., the function previously assigned to calA). The deletion of PP_2426 in P. putida GN442 engineered to accumulate vanillin resulted in a decrease in by-product (vanillyl alcohol) yield from 17% to ∼1%. Based on these results, we propose the reannotation of PP_2426 and FEZ21_09870 as areA and PP_3839 as calA-II IMPORTANCE Valorization of lignocellulose (nonedible plant matter) is of key interest for the sustainable production of chemicals from renewable resources. Lignin, one of the main constituents of lignocellulose, is a heterogeneous aromatic biopolymer that can be chemically depolymerized into a heterogeneous mixture of aromatic building blocks; those can be further converted by certain microbes into value-added aromatic chemicals, e.g., the flavoring agent vanillin. We previously isolated a Pseudomonas sp. strain with the (for the genus) unusual trait of vanillyl alcohol production during growth on vanillin. Whole-genome sequencing of the isolate led to the identification of a vanillin reductase candidate gene whose deletion in a recombinant vanillin-accumulating P. putida strain almost completely alleviated the undesired vanillyl alcohol by-product yield. These results represent an important step toward biotechnological production of vanillin from lignin using bacterial cell factories.
Collapse
|
28
|
Zhang R, Jia Z, Ma X, Ma H, Zhao Y. Characterising the morphological characters and carbohydrate metabolism of oat culms and their association with lodging resistance. PLANT BIOLOGY (STUTTGART, GERMANY) 2020; 22:267-276. [PMID: 31631474 DOI: 10.1111/plb.13058] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Accepted: 10/12/2019] [Indexed: 06/10/2023]
Abstract
Lodging resistance can be improved by enhancing the mechanical strength of culms, and culm carbohydrates could improve this mechanical strength. Culm carbohydrates can regulate development of the culm and affect its toughness. The present study determines the relationship between lodging and carbohydrate content in oat culms. Field experiments were conducted in alpine regions in 2017 and 2018 using three oat varieties with different lodging resistance. Lodging-related morphological characteristics were directly determined and culm carbohydrate content and enzyme activity related to cellulose synthesis and sucrose metabolism were evaluated with ultraviolet spectrophotometry. Results showed that the lower the gravity height or the lower ratio of gravity height to plant height, the stronger the lodging resistance of the varieties. Higher culm nonstructural (NSC) and structural (SC) carbohydrate content contributed to the ability of culms to resist lodging, especially the content of cellulose and sucrose. PCA showed that sucrose metabolism and SC content were closely related to lodging resistance. Correlation analysis showed that the lodging index (LI) was significantly negatively correlated with NSC. Sucrose content was highly and significantly positively correlated with NSC. Additionally, the activities of sucrose phosphate synthase (SPS) and sucrose synthase (SS) were highly and significantly positively correlated with sucrose and cellulose content. The relationship between field characters and oat lodging, as well as the regulatory mechanism of carbohydrate content on lodging resistance of the culm are discussed.
Collapse
Affiliation(s)
- R Zhang
- Key Laboratory of Grassland Ecosystem, College of Grassland Science, Gansu Agricultural University, Lanzhou, China
| | - Z Jia
- Academy of Animal Sciences and Veterinary, Qinghai University, Xining, China
| | - X Ma
- Academy of Animal Sciences and Veterinary, Qinghai University, Xining, China
| | - H Ma
- Key Laboratory of Grassland Ecosystem, College of Grassland Science, Gansu Agricultural University, Lanzhou, China
| | - Y Zhao
- Key Laboratory of Grassland Ecosystem, College of Grassland Science, Gansu Agricultural University, Lanzhou, China
| |
Collapse
|
29
|
Kasirajan L, Valiyaparambth R, Kubandiran A, Velu J. Isolation, cloning and expression analysis of cinnamyl alcohol dehydrogenase (CAD) involved in phenylpropanoid pathway of Erianthus arundinaceus, a wild relative of sugarcane. 3 Biotech 2020; 10:11. [PMID: 31857939 DOI: 10.1007/s13205-019-1998-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2019] [Accepted: 11/25/2019] [Indexed: 10/25/2022] Open
Abstract
In this study we have cloned and characterized cinnamyl alcohol dehydrogenase (CAD) involved in phenylpropanoid pathway which can be utilized for biomass modification for improved saccharification efficiency. The full length gene CAD is of 4 kb containing four exons and three introns, among which the exon 1 and 2 of 88 and 116 bp were conserved with sorghum and Miscanthus CADs. The coding region of CAD was identified with 1098 bp open reading frame (ORF), for 365 amino acids. In the PROSITE analysis, a zinc-containing alcohol dehydrogenase signature (GHEVVGEVVEVGPEV) and an NADP-binding domain motif (GLGGLG) was identified, while the motif analysis showed unique signature sequence of "LEPYLA" at 258-264 aa which was absent in the CAD sequences of other crops. This sequence information on CAD from Erianthus a bioenergy crop might be useful for subsequent research on lignin engineering for improved biomass conversion and for unravelling the impact of lignin on cell wall mechanics.
Collapse
|
30
|
Si T, Wang X, Huang M, Cai J, Zhou Q, Dai T, Jiang D. Double benefits of mechanical wounding in enhancing chilling tolerance and lodging resistance in wheat plants. PLANT BIOLOGY (STUTTGART, GERMANY) 2019; 21:813-824. [PMID: 30977948 DOI: 10.1111/plb.12995] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2019] [Accepted: 04/05/2019] [Indexed: 06/09/2023]
Abstract
Chilling and lodging are major threats to wheat production. However, strategies that can be used to effectively mitigate the adverse effects of these threats are still far from clear. Mechanical wounding is a traditional agronomic measure, whereas information about the role it plays in wheat chilling and lodging is scant. The aim of the present study was to investigate mechanisms underlying the protective roles of mechanical wounding in alleviating damage from chilling at jointing stage and enhancing lodging resistance after anthesis of winter wheat (Triticum aestivum L.). Our data show that net photosynthesis rate, maximum photochemical efficiency of photosystem II, activity of the antioxidant enzymes and osmolytes were significantly increased in the latest fully expanded leaves of wounded plants under chilling. Wounding also reduced hydrogen peroxide accumulation, electrolyte leakage and water loss in wounded plants. Moreover, mechanical wounding significantly reduced the length but increased the diameter and wall thickness of the basal second internode of the main stem. Quantitative and histochemical analysis further indicated that wounding increased lignin accumulation and activity of enzymes involved in lignin synthesis, which resulted in increased mechanical strength and the lodging resistance index in the main stem. We conclude from our data that mechanical wounding confers both cold tolerance by alleviating the damage caused by chilling at jointing stage and lodging resistance after anthesis of wheat plants.
Collapse
Affiliation(s)
- T Si
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
- Dry Farming Technology Key Laboratory of Shandong Province/College of Agronomy, Qingdao Agricultural University, Qingdao, China
| | - X Wang
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| | - M Huang
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| | - J Cai
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Q Zhou
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| | - T Dai
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| | - D Jiang
- National Technique Innovation Center for Regional Wheat Production, Key Laboratory of Crop Physiology and Ecology in Southern China, Ministry of Agriculture/National Engineering and Technology Center for Information Agriculture, Nanjing Agricultural University, Nanjing, China
| |
Collapse
|
31
|
Shah L, Yahya M, Shah SMA, Nadeem M, Ali A, Ali A, Wang J, Riaz MW, Rehman S, Wu W, Khan RM, Abbas A, Riaz A, Anis GB, Si H, Jiang H, Ma C. Improving Lodging Resistance: Using Wheat and Rice as Classical Examples. Int J Mol Sci 2019; 20:E4211. [PMID: 31466256 PMCID: PMC6747267 DOI: 10.3390/ijms20174211] [Citation(s) in RCA: 45] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Revised: 08/04/2019] [Accepted: 08/19/2019] [Indexed: 01/07/2023] Open
Abstract
One of the most chronic constraints to crop production is the grain yield reduction near the crop harvest stage by lodging worldwide. This is more prevalent in cereal crops, particularly in wheat and rice. Major factors associated with lodging involve morphological and anatomical traits along with the chemical composition of the stem. These traits have built up the remarkable relationship in wheat and rice genotypes either prone to lodging or displaying lodging resistance. In this review, we have made a comparison of our conceptual perceptions with foregoing published reports and proposed the fundamental controlling techniques that could be practiced to control the devastating effects of lodging stress. The management of lodging stress is, however, reliant on chemical, agronomical, and genetic factors that are reducing the risk of lodging threat in wheat and rice. But, still, there are many questions remain to be answered to elucidate the complex lodging phenomenon, so agronomists, breeders, physiologists, and molecular biologists require further investigation to address this challenging problem.
Collapse
Affiliation(s)
- Liaqat Shah
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China
| | - Muhammad Yahya
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei 230036, China
| | - Syed Mehar Ali Shah
- Department of Plant Breeding and Genetics, University of Agriculture Peshawar, Peshawar 57000, Pakistan
| | - Muhammad Nadeem
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China
| | - Ahmad Ali
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China
| | - Asif Ali
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei 230036, China
| | - Jing Wang
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei 230036, China
| | - Muhammad Waheed Riaz
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China
| | - Shamsur Rehman
- School of Life Sciences, Anhui Agricultural University, Hefei 230036, China
| | - Weixun Wu
- State Key Laboratory for Rice Biology, China National Rice Research Institute, 359#, Tiyuchang Road, Hangzhou 310006, China
| | - Riaz Muhammad Khan
- State Key Laboratory for Rice Biology, China National Rice Research Institute, 359#, Tiyuchang Road, Hangzhou 310006, China
| | - Adil Abbas
- State Key Laboratory for Rice Biology, China National Rice Research Institute, 359#, Tiyuchang Road, Hangzhou 310006, China
| | - Aamir Riaz
- State Key Laboratory for Rice Biology, China National Rice Research Institute, 359#, Tiyuchang Road, Hangzhou 310006, China
| | - Galal Bakr Anis
- State Key Laboratory for Rice Biology, China National Rice Research Institute, 359#, Tiyuchang Road, Hangzhou 310006, China
- Rice Research and Training Center, Field Crops Research Institute, Agriculture Research Center, Kafrelsheikh 33717, Egypt
| | - Hongqi Si
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China.
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China.
| | - Haiyang Jiang
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei 230036, China
| | - Chuanxi Ma
- School of Agronomy, Anhui Agricultural University, Hefei 230036, China
- Key Laboratory of Wheat Biology and Genetic Improvement on South Yellow & Huai River Valley, Ministry of Agriculture, Anhui Agricultural University, Hefei 230036, China
| |
Collapse
|
32
|
Zhao X, Zhou N, Lai S, Frei M, Wang Y, Yang L. Elevated CO 2 improves lodging resistance of rice by changing physicochemical properties of the basal internodes. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 647:223-231. [PMID: 30077851 DOI: 10.1016/j.scitotenv.2018.07.431] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2018] [Revised: 07/30/2018] [Accepted: 07/30/2018] [Indexed: 05/12/2023]
Abstract
Elevated atmospheric CO2 concentration has been shown to increase rice yield but its effect on plant lodging resistance is still under debate. In this study, we examined lodging incidence in the field and lodging-related traits of two rice cultivars with contrasting lodging susceptibility under ambient and elevated CO2 (ca. 200 μmol mol-1 above ambient) concentrations by using a free-air CO2 enrichment (FACE) system. Elevated CO2 (E-CO2) increased lodging resistance as shown by reduced visual lodging incidence in the field at the late grain filling stage in E-CO2 plots. This coincided with enhanced in situ pushing resistance of intact plants one week before lodging occurred. The positive CO2 effect was more pronounced in the lodging-susceptible cultivar LY084. In contrast, the cultivar WYJ23 displayed greater pushing resistance in the field, and no lodging occurred at either ambient or elevated CO2 conditions throughout the cropping season. The field observations were consistent with the physicochemical characterization of basal internodes of rice plants at the grain filling stage. Greater lodging-resistance of WYJ23 was mainly attributed to its shorter plant height and thicker culm wall of basal internodes. The improvement of lodging resistance by E-CO2 for the lodging-susceptible cultivar LY084 was mainly related to enhanced culm density, which was explained by elevated starch deposition in the stem. Less lodging incidence under elevated CO2 contributed to an increase in grain yield by 36% for LY084. In conclusion, rice production could benefit from elevated CO2 in a changing climate because of an increase in lodging resistance as a result of CO2-induced improvements in mechanical strength of basal internodes.
Collapse
Affiliation(s)
- Xinyong Zhao
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province, Yangzhou University, Yangzhou 225009, PR China
| | - Nan Zhou
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province, Yangzhou University, Yangzhou 225009, PR China
| | - Shuangkun Lai
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province, Yangzhou University, Yangzhou 225009, PR China
| | - Michael Frei
- Institute of Crop Science and Resource Conservation (INRES), University of Bonn, Germany
| | - Yunxia Wang
- College of Environmental Science and Engineering, Yangzhou University, Yangzhou 225009, PR China
| | - Lianxing Yang
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province, Yangzhou University, Yangzhou 225009, PR China.
| |
Collapse
|
33
|
Biochemical Characterization of the Rice Cinnamyl Alcohol Dehydrogenase Gene Family. Molecules 2018; 23:molecules23102659. [PMID: 30332817 PMCID: PMC6222663 DOI: 10.3390/molecules23102659] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2018] [Revised: 10/09/2018] [Accepted: 10/13/2018] [Indexed: 12/30/2022] Open
Abstract
Cinnamyl alcohol dehydrogenase (CAD) is involved in the final step of the phenylpropanod pathway, catalyzing the NADPH-dependent reduction of hydroxy-cinnamaldehydes into the corresponding alcohols. The rice genome contains twelve CAD and CAD-like genes, collectively called OsCADs. To elucidate the biochemical function of the OsCADs, OsCAD1, 2, 6, and 7, which are highly expressed in rice, were cloned from rice tissues. The cloned OsCADs were heterologously expressed in Escherichia coli as His-tag fusion proteins. The activity assay of the recombinant OsCADs showed that OsCAD2, 6, and 7 have CAD activity toward hydroxycinnamaldehydes, but OsCAD1 has no detectable catalytic activity. The kinetic parameters of the enzyme reactions demonstrated that OsCAD2 has the highest catalytic activity among the examined enzymes. This result agrees well with the finding that the Zn binding and NADPH binding motifs and the residues constituting the substrate binding pocket in bona fide plant CADs were fully conserved in OsCAD2. Although they have large variations in the residue for the substrate binding pocket, OsCAD6 and 7 catalyzed the reduction of hydroxycinnamaldehydes with a similar efficiency. Alignment of amino acid sequences showed that OsCAD1 lacks the GxxxxP motif for NADPH binding and has mismatches in residues important in the reduction process, which could be responsible for the loss of catalytic activity. OsCAD2 belongs to CAD Class I with bona fide CADs from other plant species and is constitutively expressed throughout the developmental stages of rice, with preferential expression in actively lignifying tissues such as the root, stem, and panicle, suggesting that it is mainly involved in developmental lignification in rice. The expression of OsCAD2 was also induced by biotic and abiotic stresses such as Xanthomonas oryzae pv. oryzae (Xoo) infection and UV-irradiation, suggesting that it plays a role in the defense response of rice, in addition to a bona fide role in developmental lignification. OsCAD6 and 7 belong in CAD Class II. Their expression is relatively lower than that of OsCAD2 and is confined to certain tissues, such as the leaf sheath, stem, and panicle. The expression of OsCAD6 was stimulated by Xoo infection and UV-irradiation. Thus OsCAD6 appears to be an inducible OsCAD that is likely involved in the defense response of rice against biotic and abiotic stresses.
Collapse
|
34
|
Podgórska A, Ostaszewska-Bugajska M, Tarnowska A, Burian M, Borysiuk K, Gardeström P, Szal B. Nitrogen Source Dependent Changes in Central Sugar Metabolism Maintain Cell Wall Assembly in Mitochondrial Complex I-Defective frostbite1 and Secondarily Affect Programmed Cell Death. Int J Mol Sci 2018; 19:ijms19082206. [PMID: 30060552 PMCID: PMC6121878 DOI: 10.3390/ijms19082206] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2018] [Revised: 07/20/2018] [Accepted: 07/24/2018] [Indexed: 12/13/2022] Open
Abstract
For optimal plant growth, carbon and nitrogen availability needs to be tightly coordinated. Mitochondrial perturbations related to a defect in complex I in the Arabidopsis thalianafrostbite1 (fro1) mutant, carrying a point mutation in the 8-kD Fe-S subunit of NDUFS4 protein, alter aspects of fundamental carbon metabolism, which is manifested as stunted growth. During nitrate nutrition, fro1 plants showed a dominant sugar flux toward nitrogen assimilation and energy production, whereas cellulose integration in the cell wall was restricted. However, when cultured on NH4+ as the sole nitrogen source, which typically induces developmental disorders in plants (i.e., the ammonium toxicity syndrome), fro1 showed improved growth as compared to NO3− nourishing. Higher energy availability in fro1 plants was correlated with restored cell wall assembly during NH4+ growth. To determine the relationship between mitochondrial complex I disassembly and cell wall-related processes, aspects of cell wall integrity and sugar and reactive oxygen species signaling were analyzed in fro1 plants. The responses of fro1 plants to NH4+ treatment were consistent with the inhibition of a form of programmed cell death. Resistance of fro1 plants to NH4+ toxicity coincided with an absence of necrotic lesion in plant leaves.
Collapse
Affiliation(s)
- Anna Podgórska
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| | - Monika Ostaszewska-Bugajska
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| | - Agata Tarnowska
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| | - Maria Burian
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| | - Klaudia Borysiuk
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| | - Per Gardeström
- Umeå Plant Science Centre, Department of Plant Physiology, Umeå University, SE-90187 Umeå, Sweden, .
| | - Bożena Szal
- Institute of Experimental Plant Biology and Biotechnology, Faculty of Biology, University of Warsaw, I. Miecznikowa 1, 02-096 Warsaw, Poland.
| |
Collapse
|
35
|
Meng Q, Gupta R, Min CW, Kim J, Kramer K, Wang Y, Park SR, Finkemeier I, Kim ST. A proteomic insight into the MSP1 and flg22 induced signaling in Oryza sativa leaves. J Proteomics 2018; 196:120-130. [PMID: 29970347 DOI: 10.1016/j.jprot.2018.04.015] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2017] [Revised: 03/02/2018] [Accepted: 04/10/2018] [Indexed: 12/25/2022]
Abstract
Previously, we reported a novel Magnaporthe oryzae- secreted protein MSP1, which triggers cell death and pathogen-associated molecular pattern (PAMP)-triggered immune (PTI) responses in rice. To investigate the MSP1 induced defense response in rice at the protein level, we employed a label-free quantitative proteomic approach, in parallel with flg22 treatment, which is a well-known elicitor. Exogenous application of MSP1 to rice leaves induced an oxidative burst, MAPK3/6 activation, and activation of pathogenesis-related genes (DUF26, PBZ, and PR-10). MaxQuant based label free proteome analysis led to the identification of 4167 protein groups of which 433 showed significant differences in response to MSP1 and/or flg22 treatment. Functional annotation of the differential proteins showed that majority of the proteins related to primary, secondary, and lipid metabolism were decreased, while proteins associated mainly with the stress response, post-translational modification and signaling were increased in abundance. Moreover, several peroxidases and receptor kinases were induced by both the elicitors, highlighting their involvement in MSP1 and flg22 induced signaling in rice. Taken together, the results reported here contribute to our understanding of MSP1 and flg22 triggered immune responses at the proteome level, thereby increasing our overall understanding of PTI signaling in rice. BIOLOGICAL SIGNIFICANCE: MSP1 is a M. oryzae secreted protein, which triggers defense responses in rice. Previous reports have shown that MSP1 is required for the pathogenicity of rice blast fungus, however, the exact mechanism of its action and its downstream targets in rice are currently unknown. Identification of the downstream targets is required in order to understand the MSP1 induced signaling in rice. Moreover, key proteins identified could also serve as potential candidates for the generation of disease resistance crops by modulating stress signaling pathways. Therefore, here we employed, for the first time, a label-free quantitative proteomic approach to investigate the MSP1 induced signaling in rice together with flg22. Functional annotation of the differential proteins showed that majority of the proteins related to primary, secondary, and lipid metabolism were decreased, while proteins related to the defense response, signaling and ROS detoxification were majorly increased. Thus, as an elicitor, recombinant MSP1 proteins could be utilized to inducing broad pathogen resistance in crops by priming the local immune responses.
Collapse
Affiliation(s)
- Qingfeng Meng
- Department of Plant Bioscience, Life and Energy Convergence Research Institute, Pusan National University, Miryang 627-706, South Korea
| | - Ravi Gupta
- Department of Plant Bioscience, Life and Energy Convergence Research Institute, Pusan National University, Miryang 627-706, South Korea.
| | - Chul Woo Min
- Department of Plant Bioscience, Life and Energy Convergence Research Institute, Pusan National University, Miryang 627-706, South Korea
| | - Jongyun Kim
- Division of Biotechnology, Korea University, Seoul 02841, South Korea
| | - Katharina Kramer
- Plant Proteomics Group, Max Planck Institute for Plant Breeding Research, Germany
| | - Yiming Wang
- Department of Plant-Microbe Interactions, Max Planck Institute for Plant Breeding Research, Carl-von-Linné Weg 10, 50829 Cologne, Germany
| | - Sang-Ryeol Park
- Gene Engineering Division, National Institute of Agricultural Sciences, Rural Development Administration, Jeonju 54874, South Korea
| | - Iris Finkemeier
- Plant Proteomics Group, Max Planck Institute for Plant Breeding Research, Germany; Institute of Plant Biology and Biotechnology, University of Muenster, Schlossplatz 7, 48149 Muenster, Germany
| | - Sun Tae Kim
- Department of Plant Bioscience, Life and Energy Convergence Research Institute, Pusan National University, Miryang 627-706, South Korea.
| |
Collapse
|
36
|
Fan W, Ge G, Liu Y, Wang W, Liu L, Jia Y. Proteomics integrated with metabolomics: analysis of the internal causes of nutrient changes in alfalfa at different growth stages. BMC PLANT BIOLOGY 2018; 18:78. [PMID: 29728056 PMCID: PMC5935980 DOI: 10.1186/s12870-018-1291-8] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2017] [Accepted: 04/24/2018] [Indexed: 05/20/2023]
Abstract
BACKGROUND Alfalfa (Medicago sativa L.) is one of the most important forage resources in the world due to its high nutritive value. However, its nutritional quality decreases during the transition from budding to flowering. Previous research revealed a decreased crude protein content and increased fibre content in alfalfa forage harvested at later maturity stages, leading to a reduction in nutritional quality. However, the reasons for this phenomenon have not been explained at the molecular level. RESULTS In this study, leaves from the WL319HQ alfalfa cultivar were harvested at two developmental stages (budding and mid-flowering). The leaves were used to test the variable expression of proteins and metabolites during these stages. TMT-based quantitative proteomics and LC-MS/MS-based untargeted metabolomics methods were employed in this study. A total of 415 proteins and 49 metabolites showed at least a 1.2-fold difference in abundance during these stages. Most of the differentially expressed proteins and metabolites were involved in metabolic processes, including carbohydrate metabolism, starch and sucrose metabolism, phenylpropanoid biosynthesis, and biosynthesis of amino acids. Alfalfa leaves in mid-flowering contain less crude protein due to the decrease in L-glutamic acid content. Carbohydrate metabolism provides the raw material for the synthesis of hemicellulose, resulting in an increase in the hemicellulose content of the alfalfa leaves, leading to an increase in the NDF content. In addition, the increase in L-phenylalanine content could have provided the conditions necessary for lignin synthesis. These are the main factors leading to reductions in alfalfa relative feed value (RFV) and quality. CONCLUSIONS This study used joint proteomic and metabolomic analyses to elucidate the relationship between the reduction in the nutritional value of alfalfa and complex biological processes. This provides a theoretical basis for producing high-quality alfalfa hay and sets the stage for further research.
Collapse
Affiliation(s)
- Wenqiang Fan
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| | - Gentu Ge
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| | - Yinghao Liu
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| | - Wei Wang
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| | - Liying Liu
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| | - Yushan Jia
- College of Grassland Resources and Environment, Key Laboratory of Forage Cultivation, Processing and High-Efficiency Utilization of the Ministry of Agriculture and Key Laboratory of Grassland Resources of the Ministry of Education, Inner Mongolia Agricultural University, Hohhot, 010011 China
| |
Collapse
|
37
|
Preisner M, Wojtasik W, Kostyn K, Boba A, Czuj T, Szopa J, Kulma A. The cinnamyl alcohol dehydrogenase family in flax: Differentiation during plant growth and under stress conditions. JOURNAL OF PLANT PHYSIOLOGY 2018; 221:132-143. [PMID: 29277026 DOI: 10.1016/j.jplph.2017.11.015] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2017] [Revised: 11/18/2017] [Accepted: 11/19/2017] [Indexed: 06/07/2023]
Abstract
Cinnamyl alcohol dehydrogenase (CAD), which catalyzes the reduction of cinnamaldehydes to their alcohol derivatives, is represented by a large family of proteins. The aim of the study was to identify the CAD isoforms in flax (Linum usitatissimum L.) - LuCADs - and to determine their specificity to enhance knowledge of the mechanisms controlling cell wall lignification in flax under environmental stresses. On the basis of genome-wide analysis, we identified 15 isoforms (one in two copies) belonging to three major classes of the CAD protein family. Their specificity was determined at the transcriptomic level in different tissues/organs, under Fusarium infection and abiotic stresses. Considering the function of particular LuCADs, it was established that LuCAD1 and 2 belong to Class I and they take part in the lignification of maturing stem and in the response to cold and drought stress. The Class II members LuCAD3, LuCAD4, LuCAD5 and LuCAD6 play various roles in flax being putatively responsible for lignin synthesis in different organs or under certain conditions. The obtained results indicate that within Class II, LuCAD6 was the most abundant in seedlings and maturing stems, LuCAD3 in leaves, and LuCAD4 in stems. Comparative analysis showed that expression of LuCAD genes in roots after F. oxysporum infection had the greatest contribution to differentiation of LuCAD expression patterns. Surprisingly, most of the analyzed LuCAD isoforms had reduced expression after pathogen infection. The decrease in mRNA level was primarily observed for LuCAD6 and LuCAD4, but also LuCAD1 and 8. However, the induction of LuCAD expression was mostly characteristic for Class I LuCAD1 and 2 in leaves. For cold stress, a clear correlation with phylogenic class membership was observed. Low temperatures caused induction of CAD isoforms belonging to Class I and repression of LuCADs from Class III.
Collapse
Affiliation(s)
- Marta Preisner
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland; Institute of Genetics, Plant Breeding and Seed Production, Department of Life Sciences and Technology, Wroclaw University of Environmental and Plant Sciences, pl. Grunwaldzki 24a, 50-363 Wroclaw, Poland
| | - Wioleta Wojtasik
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland.
| | - Kamil Kostyn
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland; Institute of Genetics, Plant Breeding and Seed Production, Department of Life Sciences and Technology, Wroclaw University of Environmental and Plant Sciences, pl. Grunwaldzki 24a, 50-363 Wroclaw, Poland.
| | - Aleksandra Boba
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland.
| | - Tadeusz Czuj
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland; Institute of Genetics, Plant Breeding and Seed Production, Department of Life Sciences and Technology, Wroclaw University of Environmental and Plant Sciences, pl. Grunwaldzki 24a, 50-363 Wroclaw, Poland.
| | - Jan Szopa
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland; Institute of Genetics, Plant Breeding and Seed Production, Department of Life Sciences and Technology, Wroclaw University of Environmental and Plant Sciences, pl. Grunwaldzki 24a, 50-363 Wroclaw, Poland.
| | - Anna Kulma
- Institute of Genetic Biochemistry, Department of Biotechnology, University of Wroclaw, Przybyszewskiego 63/77, 51-148 Wroclaw, Poland.
| |
Collapse
|
38
|
Ma D, Xu C, Alejos-Gonzalez F, Wang H, Yang J, Judd R, Xie DY. Overexpression of Artemisia annua Cinnamyl Alcohol Dehydrogenase Increases Lignin and Coumarin and Reduces Artemisinin and Other Sesquiterpenes. FRONTIERS IN PLANT SCIENCE 2018; 9:828. [PMID: 29971081 PMCID: PMC6018409 DOI: 10.3389/fpls.2018.00828] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Accepted: 05/28/2018] [Indexed: 05/02/2023]
Abstract
Artemisia annua is the only medicinal crop that produces artemisinin for malarial treatment. Herein, we describe the cloning of a cinnamyl alcohol dehydrogenase (AaCAD) from an inbred self-pollinating (SP) A. annua cultivar and its effects on lignin and artemisinin production. A recombinant AaCAD was purified via heterogeneous expression. Enzyme assays showed that the recombinant AaCAD converted p-coumaryl, coniferyl, and sinapyl aldehydes to their corresponding alcohols, which are key intermediates involved in the biosynthesis of lignin. Km, Vmax, and Vmax/Km values were calculated for all three substrates. To characterize its function in planta, AaCAD was overexpressed in SP plants. Quantification using acetyl bromide (AcBr) showed significantly higher lignin contents in transgenics compared with wild-type (WT) plants. Moreover, GC-MS-based profiling revealed a significant increase in coumarin contents in transgenic plants. By contrast, HPLC-MS analysis showed significantly reduced artemisinin contents in transgenics compared with WT plants. Furthermore, GC-MS analysis revealed a decrease in the contents of arteannuin B and six other sesquiterpenes in transgenic plants. Confocal microscopy analysis showed the cytosolic localization of AaCAD. These data demonstrate that AaCAD plays a dual pathway function in the cytosol, in which it positively enhances lignin formation but negatively controls artemisinin formation. Based on these data, crosstalk between these two pathways mediated by AaCAD catalysis is discussed to understand the metabolic control of artemisinin biosynthesis in plants for high production.
Collapse
Affiliation(s)
- Dongming Ma
- Research Center of Chinese Herbal Resource Science and Engineering, Guangzhou University of Chinese Medicine, Guangzhou, China
- Department of Plant & Microbial Biology, North Carolina State University, Raleigh, NC, United States
| | - Chong Xu
- Research Center of Chinese Herbal Resource Science and Engineering, Guangzhou University of Chinese Medicine, Guangzhou, China
| | - Fatima Alejos-Gonzalez
- Department of Plant & Microbial Biology, North Carolina State University, Raleigh, NC, United States
| | - Hong Wang
- Graduate University of Chinese Academy of Sciences, Beijing, China
| | - Jinfen Yang
- Research Center of Chinese Herbal Resource Science and Engineering, Guangzhou University of Chinese Medicine, Guangzhou, China
| | - Rika Judd
- Department of Plant & Microbial Biology, North Carolina State University, Raleigh, NC, United States
| | - De-Yu Xie
- Department of Plant & Microbial Biology, North Carolina State University, Raleigh, NC, United States
- *Correspondence: De-Yu Xie,
| |
Collapse
|
39
|
Cheng X, Li M, Li D, Zhang J, Jin Q, Sheng L, Cai Y, Lin Y. Characterization and analysis of CCR and CAD gene families at the whole-genome level for lignin synthesis of stone cells in pear ( Pyrus bretschneideri) fruit. Biol Open 2017; 6:1602-1613. [PMID: 29141952 PMCID: PMC5703608 DOI: 10.1242/bio.026997] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Accepted: 09/18/2017] [Indexed: 12/24/2022] Open
Abstract
The content of stone cells has significant effects on the flavour and quality of pear fruit. Previous research suggested that lignin deposition is closely related to stone cell formation. In the lignin biosynthetic pathway, cinnamoyl-CoA reductase (CCR) and cinnamyl alcohol dehydrogenase (CAD), dehydrogenase/reductase family members, catalyse the last two steps in monolignol synthesis. However, there is little knowledge of the characteristics of the CCR and CAD families in pear and their involvement in lignin synthesis of stone cells. In this study, 31 CCRs and 26 CADs were identified in the pear genome. Phylogenetic trees for CCRs and CADs were constructed; key amino acid residues were analysed, and three-dimensional structures were predicted. Using quantitative real-time polymerase chain reaction (qRT-PCR), PbCAD2, PbCCR1, -2 and -3 were identified as participating in lignin synthesis of stone cells in pear fruit. Subcellular localization analysis showed that the expressed proteins (PbCAD2, PbCCR1, -2 and -3) are found in the cytoplasm or at the cell membrane. These results reveal the evolutionary features of the CCR and CAD families in pear as well as the genes responsible for regulation of lignin synthesis and stone cell development in pear fruit.
Collapse
Affiliation(s)
- Xi Cheng
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Manli Li
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Dahui Li
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Jinyun Zhang
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
- Horticultural Institute, Anhui Academy of Agricultural Sciences, Hefei, Anhui 230031, China
| | - Qing Jin
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Lingling Sheng
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Yongping Cai
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| | - Yi Lin
- School of Life Science, Anhui Agricultural University, No. 130, Changjiang West Road, Hefei 230036, China
| |
Collapse
|
40
|
Baldé A, Neves D, García-Breijo FJ, Pais MS, Cravador A. De novo assembly of Phlomis purpurea after challenging with Phytophthora cinnamomi. BMC Genomics 2017; 18:700. [PMID: 28877668 PMCID: PMC5585901 DOI: 10.1186/s12864-017-4042-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2016] [Accepted: 08/09/2017] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Phlomis plants are a source of biological active substances with potential applications in the control of phytopathogens. Phlomis purpurea (Lamiaceae) is autochthonous of southern Iberian Peninsula and Morocco and was found to be resistant to Phytophthora cinnamomi. Phlomis purpurea has revealed antagonistic effect in the rhizosphere of Quercus suber and Q. ilex against P. cinnamomi. Phlomis purpurea roots produce bioactive compounds exhibiting antitumor and anti-Phytophthora activities with potential to protect susceptible plants. Although these important capacities of P. purpurea have been demonstrated, there is no transcriptomic or genomic information available in public databases that could bring insights on the genes underlying this anti-oomycete activity. RESULTS Using Illumina technology we obtained a de novo assembly of P. purpurea transcriptome and differential transcript abundance to identify putative defence related genes in challenged versus non-challenged plants. A total of 1,272,600,000 reads from 18 cDNA libraries were merged and assembled into 215,739 transcript contigs. BLASTX alignment to Nr NCBI database identified 124,386 unique annotated transcripts (57.7%) with significant hits. Functional annotation identified 83,550 out of 124,386 unique transcripts, which were mapped to 141 pathways. 39% of unigenes were assigned GO terms. Their functions cover biological processes, cellular component and molecular functions. Genes associated with response to stimuli, cellular and primary metabolic processes, catalytic and transporter functions were among those identified. Differential transcript abundance analysis using DESeq revealed significant differences among libraries depending on post-challenge times. Comparative cyto-histological studies of P. purpurea roots challenged with P. cinnamomi zoospores and controls revealed specific morphological features (exodermal strips and epi-cuticular layer), that may provide a constitutive efficient barrier against pathogen penetration. Genes involved in cutin biosynthesis and in exodermal Casparian strips formation were up-regulated. CONCLUSIONS The de novo assembly of transcriptome using short reads for a non-model plant, P. purpurea, revealed many unique transcripts useful for further gene expression, biological function, genomics and functional genomics studies. The data presented suggest a combination of a constitutive resistance and an increased transcriptional response from P. purpurea when challenged with the pathogen. This knowledge opens new perspectives for the understanding of defence responses underlying pathogenic oomycete/plant interaction upon challenge with P. cinnamomi.
Collapse
Affiliation(s)
- Aladje Baldé
- Plant Molecular Biology and Biotechnology Lab, Center for Biosystems (BioSys), Functional and Integrative Genomics (BioFIG), Edifício C2, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016 Lisbon, Portugal
- Present Address: Universidade Jean Piaget, Bissau, Guinea-Bissau
| | - Dina Neves
- Faculdade de Ciências e Tecnologia, Universidade do Algarve, Campus de Gambelas, 8005-139 Faro, Portugal
| | - Francisco J. García-Breijo
- Departamento de Ecosistemas Agroforestales, Universidad Politécnica de Valencia, Camino de Vera s/n, 46022 Valencia, Spain
| | - Maria Salomé Pais
- Plant Molecular Biology and Biotechnology Lab, Center for Biosystems (BioSys), Functional and Integrative Genomics (BioFIG), Edifício C2, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016 Lisbon, Portugal
| | - Alfredo Cravador
- Centre for Mediterranean Bioresources and Food (MeditBio), FCT, Universidade do Algarve, Campus de Gambelas, 8005-139 Faro, Portugal
| |
Collapse
|
41
|
Ma QH, Zhu HH, Han JQ. Wheat ROP proteins modulate defense response through lignin metabolism. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2017; 262:32-38. [PMID: 28716418 DOI: 10.1016/j.plantsci.2017.04.017] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2017] [Revised: 04/26/2017] [Accepted: 04/28/2017] [Indexed: 05/02/2023]
Abstract
ROP is a subfamily of small GTP-binding proteins that uniquely exist in plants. It acts as versatile molecular switches that regulate various developmental processes. Some ROP proteins are also reported to affect defense responses, although their exact mechanism is not fully understood. Herein, ROP members in wheat were mined; the functions of three wheat ROP proteins were studied. RT-PCR results showed that the expression of TaRac1 was rapidly and strongly induced after leaf rust infection. TaRac1 interacted with TaCCR in yeast-hybridization assay. The overexpression of TaRac1 in tobacco promoted CCR and CAD gene expression, increased the total lignin content and sinapyl lignin proportion, and then enhanced resistance to tobacco black shank and bacterial wilt diseases. In contrast, TaRac3 and TaRac4 did not show to interact with TaCCR. Furthermore, the overexpression of TaRac3 and TaRac4 did not increase lignin gene expression and lignin accumulation either. Unlike TaRac1, the overexpression of TaRac3 increased susceptibility to both black shank and bacterial wilt pathogens, while overexpression of TaRac4 showed no effect on disease resistance but promoted the root growth in tobacco seedling. These data collectively suggest that TaRac1 in Group II is mainly involved in regulating lignin metabolism which, in turn, responsible for the observed roles in pathogen resistance. TaRac3 and TaRac4 have the minor roles in defense response but may act on regulation in plant developmental processes. These results shed light on the complexity and diverse function of ROP in plant defense pathway.
Collapse
Affiliation(s)
- Qing-Hu Ma
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China.
| | - Hai-Hao Zhu
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Jia-Qi Han
- Key Laboratory of Plant Resources, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China
| |
Collapse
|
42
|
Dorairaj D, Ismail MR. Distribution of Silicified Microstructures, Regulation of Cinnamyl Alcohol Dehydrogenase and Lodging Resistance in Silicon and Paclobutrazol Mediated Oryza sativa. Front Physiol 2017; 8:491. [PMID: 28747889 PMCID: PMC5506179 DOI: 10.3389/fphys.2017.00491] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2017] [Accepted: 06/27/2017] [Indexed: 11/13/2022] Open
Abstract
Lodging is a phenomenon that affects most of the cereal crops including rice, Oryza sativa. This is due to the fragile nature of herbaceous plants whose stems are non-woody, thus affecting its ability to grow upright. Silicon (Si), a beneficial nutrient is often used to toughen and protect plants from biotic and abiotic stresses. Deposition of Si in plant tissues enhances the rigidity and stiffness of the plant as a whole. Silicified cells provide the much needed strength to the culm to resist breaking. Lignin plays important roles in cell wall structural integrity, stem strength, transport, mechanical support, and plant pathogen defense. The aim of this study is to resolve effects of Si on formation of microstructure and regulation of cinnamyl alcohol dehydrogenase (CAD), a key gene responsible for lignin biosynthesis. Besides evaluating silicon, paclobutrazol (PBZ) a plant growth retartdant that reduces internode elongation is also incorporated in this study. Hardness, brittleness and stiffness were improved in presence of silicon thus reducing lodging. Scanning electron micrographs with the aid of energy dispersive x-ray (EDX) was used to map silicon distribution. Presence of trichomes, silica cells, and silica bodies were detected in silicon treated plants. Transcripts of CAD gene was also upregulated in these plants. Besides, phloroglucinol staining showed presence of lignified vascular bundles and sclerenchyma band. In conclusion, silicon treated rice plants showed an increase in lignin content, silicon content, and formation of silicified microstructures.
Collapse
Affiliation(s)
- Deivaseeno Dorairaj
- Department of Crop Science, Faculty of Agriculture, Universiti Putra MalaysiaSerdang, Malaysia
| | - Mohd Razi Ismail
- Department of Crop Science, Faculty of Agriculture, Universiti Putra MalaysiaSerdang, Malaysia.,Laboratory of Climate-Smart Food Crop Production, Institute of Tropical Agriculture and Food Security, Universiti Putra MalaysiaSerdang, Malaysia
| |
Collapse
|
43
|
Zheng M, Chen J, Shi Y, Li Y, Yin Y, Yang D, Luo Y, Pang D, Xu X, Li W, Ni J, Wang Y, Wang Z, Li Y. Manipulation of lignin metabolism by plant densities and its relationship with lodging resistance in wheat. Sci Rep 2017; 7:41805. [PMID: 28150816 PMCID: PMC5288770 DOI: 10.1038/srep41805] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 12/29/2016] [Indexed: 01/10/2023] Open
Abstract
Increasing plant density is one of the most efficient ways of increasing wheat (Triticum aestivum L.) grain production. However, overly dense plant populations have an increased risk of lodging. We examined lignin deposition during wheat stem development and the regulatory effects of plant density using the wheat cultivars shannong23 and weimai8. Plants were cultivated at densities of 75, 225 and 375 plants per m2 during two growing seasons. Our results showed that decreasing plant density enhanced culm quality, as revealed by increased culm diameter, wall thickness and dry weight per unit length, and improved the structure of sclerenchyma and vascular bundles by increasing lignification. In addition, more lignins were deposited in the secondary cell walls, resulting in strong lodging resistance. The guaiacyl unit was the major component of lignin and there was a higher content of the syringyl unit than that of the hydroxybenzyl unit. Furthermore, we hypothesised that the syringyl unit may correlate with stem stiffness. We describe here, to the best of our knowledge, the systematic study of the mechanism involved in the regulation of stem breaking strength by plant density, particularly the effect of plant density on lignin biosynthesis and its relationship with lodging resistance in wheat.
Collapse
Affiliation(s)
- Mengjing Zheng
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Jin Chen
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Yuhua Shi
- Agricultural Bureau of Yanzhou District, Jining, Shandong, P. R. China
| | - Yanxia Li
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Yanping Yin
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Dongqing Yang
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Yongli Luo
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Dangwei Pang
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Xu Xu
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Wenqian Li
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Jun Ni
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Yuanyuan Wang
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Zhenlin Wang
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| | - Yong Li
- State Key Laboratory of Crop Biology, Ministry of Science and Technology, Shandong Agricultural University, Tai'an 271018, Shandong, P. R. China
| |
Collapse
|
44
|
Wan L, Li B, Lei Y, Yan L, Ren X, Chen Y, Dai X, Jiang H, Zhang J, Guo W, Chen A, Liao B. Mutant Transcriptome Sequencing Provides Insights into Pod Development in Peanut ( Arachis hypogaea L.). FRONTIERS IN PLANT SCIENCE 2017; 8:1900. [PMID: 29170673 PMCID: PMC5684126 DOI: 10.3389/fpls.2017.01900] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2017] [Accepted: 10/20/2017] [Indexed: 05/22/2023]
Abstract
Pod size is the major yield component and a key target trait that is selected for in peanut breeding. However, although numerous quantitative trait loci (QTLs) for peanut pod size have been described, the molecular mechanisms underlying the development of this characteristic remain elusive. A peanut mutant with a narrower pod was developed in this study using ethyl methanesulfonate (EMS) mutagenesis and designated as the "pod width" mutant line (pw). The fresh pod weight of pw was only about 40% of that seen in the wild-type (WT) Zhonghua16, while the hull and seed filling of the mutant both also developed at earlier stages. Pods from both pw and WT lines were sampled 20, 40, and 60 days after flowering (DAF) and used for RNA-Seq analysis; the results revealed highly differentially expressed lignin metabolic pathway genes at all three stages, but especially at DAF 20 and DAF 40. At the same time, expression of genes related to auxin signal transduction was found to be significantly repressed during the pw early pod developmental stage. A genome-wide comparative analysis of expression profiles revealed 260 differentially expressed genes (DEGs) across all three stages, and two candidate genes, c26901_g1 (CAD) and c37339_g1 (ACS), responsible for pod width were identified by integrating expression patterns and function annotation of the common DEGs within the three stages. Taken together, the information provided in this study illuminates the processes underlying peanut pod development, and will facilitate further identification of causal genes and the development of improved peanut varieties with higher yields.
Collapse
Affiliation(s)
- Liyun Wan
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Bei Li
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yong Lei
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Liying Yan
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Xiaoping Ren
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yuning Chen
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Xiaofeng Dai
- Institute of Food Science and Technology of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Huifang Jiang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Juncheng Zhang
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Wei Guo
- Institute of Food Science and Technology of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Ao Chen
- Zhanjiang Academy of Agricultural Sciences, Zhanjiang, China
| | - Boshou Liao
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Oil Crops Research Institute of Chinese Academy of Agricultural Sciences, Wuhan, China
- *Correspondence: Boshou Liao
| |
Collapse
|
45
|
Wu L, Zhang W, Ding Y, Zhang J, Cambula ED, Weng F, Liu Z, Ding C, Tang S, Chen L, Wang S, Li G. Shading Contributes to the Reduction of Stem Mechanical Strength by Decreasing Cell Wall Synthesis in Japonica Rice ( Oryza sativa L.). FRONTIERS IN PLANT SCIENCE 2017; 8:881. [PMID: 28611803 PMCID: PMC5447739 DOI: 10.3389/fpls.2017.00881] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Accepted: 05/10/2017] [Indexed: 05/08/2023]
Abstract
Low solar radiation caused by industrial development and solar dimming has become a limitation in crop production in China. It is widely accepted that low solar radiation influences many aspects of plant development, including slender, weak stems and susceptibility to lodging. However, the underlying mechanisms are not well understood. To clarify how low solar radiation affects stem mechanical strength formation and lodging resistance, the japonica rice cultivars Wuyunjing23 (lodging-resistant) and W3668 (lodging-susceptible) were grown under field conditions with normal light (Control) and shading (the incident light was reduced by 60%) with a black nylon net. The yield and yield components, plant morphological characteristics, the stem mechanical strength, cell wall components, culm microstructure, gene expression correlated with cellulose and lignin biosynthesis were measured. The results showed that shading significantly reduced grain yield attributed to reduction of spikelets per panicles and grain weight. The stem-breaking strength decreased significantly under shading treatment; consequently, resulting in higher lodging index in rice plant in both varieties, as revealed by decreased by culm diameter, culm wall thickness and increased plant height, gravity center height. Compared with control, cell wall components including non-structural carbohydrate, sucrose, cellulose, and lignin reduced quite higher. With histochemical straining, shading largely reduced lignin deposition in the sclerenchyma cells and vascular bundle cells compared with control, and decreased cellulose deposition in the parenchyma cells of culm tissue in both Wuyunjing23 and W3668. And under shading condition, gene expression involved in secondary cell wall synthesis, OsPAL, OsCOMT, OsCCoAOMT, OsCCR, and OsCAD2, and primary cell wall synthesis, OsCesA1, OsCesA3, and OsCesA8 were decreased significantly. These results suggest that gene expression involved in the reduction of lignin and cellulose in both sclerenchyma and parenchyma cells, which attribute to lignin and cellulose in culm tissue and weak mechanical tissue, consequently, result in poor stem strength and higher lodging risks. Highlights: (1) Shading decreases the stem mechanical strength of japonica rice by decreasing non-structural carbohydrate, sucrose, lignin, and cellulose accumulation in culms. (2) The decrease of carbon source under shading condition is the cause for the lower lignin and cellulose accumulation in culm. (3) The expression of genes involved in lignin and primarily cell wall cellulose biosynthesis (OsCesA1, OsCesA3, and OsCesA8) at the stem formation stage are down-regulated under shading condition, inducing defective cell wall development and poor lodging resistance.
Collapse
Affiliation(s)
- Longmei Wu
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Wujun Zhang
- Chongqing Ratooning Rice Research Center, Chongqing Academy of Agricultural SciencesChongqing, China
| | - Yanfeng Ding
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Jianwei Zhang
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Elidio D. Cambula
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Fei Weng
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Zhenghui Liu
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Chengqiang Ding
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - She Tang
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Lin Chen
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Shaohua Wang
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
| | - Ganghua Li
- College of Agronomy, Nanjing Agricultural UniversityNanjing, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural UniversityNanjing, China
- Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityNanjing, China
- *Correspondence: Ganghua Li,
| |
Collapse
|
46
|
Bhattacharyya D, Hazra S, Banerjee A, Datta R, Kumar D, Chakrabarti S, Chattopadhyay S. Transcriptome-wide identification and characterization of CAD isoforms specific for podophyllotoxin biosynthesis from Podophyllum hexandrum. PLANT MOLECULAR BIOLOGY 2016; 92:1-23. [PMID: 27387305 DOI: 10.1007/s11103-016-0492-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2015] [Accepted: 05/14/2016] [Indexed: 05/06/2023]
Abstract
Podophyllotoxin (ptox) is a therapeutically important lignan derived from Podophyllum hexandrum and is used as a precursor for the synthesis of anticancer drugs etoposide, teniposide and etopophose. In spite of its enormous economic significance, genomic information on this endangered medicinal herb is scarce. We have performed de novo transcriptome analysis of methyl jasmonate (MeJA)-treated P. hexandrum cell cultures exhibiting enhanced ptox accumulation. The results revealed the maximum up-regulation of several isoforms of cinnamyl alcohol dehydrogenase (CAD). CAD catalyzes the synthesis of coniferyl alcohol and sinapyl alcohol from coniferaldehyde (CAld) and sinapaldehyde respectively. Coniferyl alcohol can produce both lignin and lignan while sinapyl alcohol produces only lignin. To isolate the CAD isoforms favoring ptox, we deduced full length cDNA sequences of four CAD isoforms: PhCAD1, PhCAD2, PhCAD3 and PhCAD4 from the contigs of the transcriptome data. In vitro enzyme assays indicated a higher affinity for CAld over sinapaldehyde for each isoform. In silico molecular docking analyses also suggested that PhCAD3 has a higher binding preference with CAld over sinapaldehyde, followed by PhCAD4, PhCAD2, and PhCAD1, respectively. The transgenic cell cultures overexpressing these isoforms independently revealed that PhCAD3 favored the maximum accumulation of ptox as compared to lignin followed by PhCAD4 and PhCAD2, whereas, PhCAD1 favored both equally. Together, our study reveals transcriptome-wide identification and characterization of ptox specific CAD isoforms from P. hexandrum. It provides a useful resource for future research not only on the ptox biosynthetic pathway but on overall P. hexandrum, an endangered medicinal herb with immense therapeutic importance.
Collapse
Affiliation(s)
- Dipto Bhattacharyya
- Division of Biotechnology, Chonbuk National University, 79 Gobong-ro, Iksan-si, Jeollabuk-do, 570-752, Republic of Korea
| | - Saptarshi Hazra
- Plant Biology Lab., Organic and Medicinal Chemistry Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India
| | - Anindyajit Banerjee
- Structural Biology and Bioinformatics Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India
| | - Riddhi Datta
- Plant Biology Lab., Organic and Medicinal Chemistry Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India
| | - Deepak Kumar
- Plant Biology Lab., Organic and Medicinal Chemistry Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India
| | - Saikat Chakrabarti
- Structural Biology and Bioinformatics Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India
| | - Sharmila Chattopadhyay
- Plant Biology Lab., Organic and Medicinal Chemistry Division, CSIR-Indian Institute Chemical Biology, 4, Raja S. C. Mullick Road, Kolkata, 700 032, India.
| |
Collapse
|
47
|
Nguyen TN, Son S, Jordan MC, Levin DB, Ayele BT. Lignin biosynthesis in wheat (Triticum aestivum L.): its response to waterlogging and association with hormonal levels. BMC PLANT BIOLOGY 2016; 16:28. [PMID: 26811086 PMCID: PMC4727291 DOI: 10.1186/s12870-016-0717-4] [Citation(s) in RCA: 52] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2015] [Accepted: 01/18/2016] [Indexed: 05/07/2023]
Abstract
BACKGROUND Lignin is an important structural component of plant cell wall that confers mechanical strength and tolerance against biotic and abiotic stressors; however it affects the use of biomass such as wheat straw for some industrial applications such as biofuel production. Genetic alteration of lignin quantity and quality has been considered as a viable option to overcome this problem. However, the molecular mechanisms underlying lignin formation in wheat biomass has not been studied. Combining molecular and biochemical approaches, the present study investigated the transcriptional regulation of lignin biosynthesis in two wheat cultivars with varying lodging characteristics and also in response to waterlogging. It also examined the association of lignin level in tissues with that of plant hormones implicated in the control of lignin biosynthesis. RESULTS Analysis of lignin biosynthesis in the two wheat cultivars revealed a close association of lodging resistance with internode lignin content and expression of 4-coumarate:CoA ligase1 (4CL1), p-coumarate 3-hydroxylase1 (C3H1), cinnamoyl-CoA reductase2 (CCR2), ferulate 5-hydroxylase2 (F5H2) and caffeic acid O-methyltransferase2 (COMT2), which are among the genes highly expressed in wheat tissues, implying the importance of these genes in mediating lignin deposition in wheat stem. Waterlogging of wheat plants reduced internode lignin content, and this effect is accompanied by transcriptional repression of three of the genes characterized as highly expressed in wheat internode including phenylalanine ammonia-lyase6 (PAL6), CCR2 and F5H2, and decreased activity of PAL. Expression of the other genes was, however, induced by waterlogging, suggesting their role in the synthesis of other phenylpropanoid-derived molecules with roles in stress responses. Moreover, difference in internode lignin content between cultivars or change in its level due to waterlogging is associated with the level of cytokinin. CONCLUSION Lodging resistance, tolerance against biotic and abiotic stresses and feedstock quality of wheat biomass are closely associated with its lignin content. Therefore, the findings of this study provide important insights into the molecular mechanisms underlying lignin formation in wheat, an important step towards the development of molecular tools that can facilitate the breeding of wheat cultivars for optimized lignin content and enhanced feedstock quality without affecting other lignin-related agronomic benefits.
Collapse
Affiliation(s)
- Tran-Nguyen Nguyen
- Department of Plant Science, University of Manitoba, 222 Agriculture Building, Winnipeg, MB, R3T 2N2, Canada.
| | - SeungHyun Son
- Department of Plant Science, University of Manitoba, 222 Agriculture Building, Winnipeg, MB, R3T 2N2, Canada.
| | - Mark C Jordan
- Morden Reasearch and Development Centre, Agriculture and Agri-Food Canada, Morden, MB, R6M 1Y5, Canada.
| | - David B Levin
- Department of Biosystems Engineering, University of Manitoba, Winnipeg, MB, R3T 5V6, Canada.
| | - Belay T Ayele
- Department of Plant Science, University of Manitoba, 222 Agriculture Building, Winnipeg, MB, R3T 2N2, Canada.
| |
Collapse
|
48
|
Rong W, Luo M, Shan T, Wei X, Du L, Xu H, Zhang Z. A Wheat Cinnamyl Alcohol Dehydrogenase TaCAD12 Contributes to Host Resistance to the Sharp Eyespot Disease. FRONTIERS IN PLANT SCIENCE 2016; 7:1723. [PMID: 27899932 PMCID: PMC5110560 DOI: 10.3389/fpls.2016.01723] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Accepted: 11/02/2016] [Indexed: 05/18/2023]
Abstract
Sharp eyespot, caused mainly by the necrotrophic fungus Rhizoctonia cerealis, is a destructive disease in hexaploid wheat (Triticum aestivum L.). In Arabidopsis, certain cinnamyl alcohol dehydrogenases (CADs) have been implicated in monolignol biosynthesis and in defense response to bacterial pathogen infection. However, little is known about CADs in wheat defense responses to necrotrophic or soil-borne pathogens. In this study, we isolate a wheat CAD gene TaCAD12 in response to R. cerealis infection through microarray-based comparative transcriptomics, and study the enzyme activity and defense role of TaCAD12 in wheat. The transcriptional levels of TaCAD12 in sharp eyespot-resistant wheat lines were significantly higher compared with those in susceptible wheat lines. The sequence and phylogenetic analyses revealed that TaCAD12 belongs to IV group in CAD family. The biochemical assay proved that TaCAD12 protein is an authentic CAD enzyme and possesses catalytic efficiencies toward both coniferyl aldehyde and sinapyl aldehyde. Knock-down of TaCAD12 transcript significantly repressed resistance of the gene-silenced wheat plants to sharp eyespot caused by R. cerealis, whereas TaCAD12 overexpression markedly enhanced resistance of the transgenic wheat lines to sharp eyespot. Furthermore, certain defense genes (Defensin, PR10, PR17c, and Chitinase1) and monolignol biosynthesis-related genes (TaCAD1, TaCCR, and TaCOMT1) were up-regulated in the TaCAD12-overexpressing wheat plants but down-regulated in TaCAD12-silencing plants. These results suggest that TaCAD12 positively contributes to resistance against sharp eyespot through regulation of the expression of certain defense genes and monolignol biosynthesis-related genes in wheat.
Collapse
|
49
|
Ma QH, Luo HR. Biochemical characterization of caffeoyl coenzyme A 3-O-methyltransferase from wheat. PLANTA 2015; 242:113-22. [PMID: 25854602 DOI: 10.1007/s00425-015-2295-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Accepted: 03/30/2015] [Indexed: 05/09/2023]
Abstract
TaCCoAOMT1 is located in wheat chromosome 7A and highly expressed in stem and root. It is important for lignin biosynthesis, and associated with stem maturity but not lodging resistance. Caffeoyl coenzyme A 3-O-methyltransferases (CCoAOMTs) are one important class of enzymes to carry out the transfer of the methyl group from S-adenosylmethionine to the hydroxyl group, and play important roles in lignin and flavonoids biosynthesis. In the present study, sequences for CCoAOMT from the wheat genome were analyzed. One wheat CCoAOMT that belonged to bona fide subclade involved in lignin biosynthesis, namely TaCCoAOMT1, was obtained by the prokaryotic expression in E. coli. The three-dimensional structure prediction showed a highly similar structure of TaCCoAOMT1 with MsCCoAOMT. Recombinant TaCCoAOMT1 protein could only use caffeoyl CoA and 5-hydroxyferuloyl CoA as effective substrates and caffeoyl CoA as the best substrate. TaCCoAOMT1 had a narrow optimal pH and thermal stability. The TaCCoAOMT1 gene was highly expressed in wheat stem and root tissues, paralleled CCoAOMT enzyme activity. TaCCoAOMT1 mRNA abundance and enzyme activity increased linearly with stem maturity, but showed little difference between wheat lodging-resistant (H4546) and lodging-sensitive (C6001) cultivars in elongation, heading and milky stages. These data suggest that TaCCoAOMT1 is an important CCoAOMT for lignin biosynthesis that is critical for stem development, but not directly associated with lodging-resistant trait in wheat.
Collapse
Affiliation(s)
- Qing-Hu Ma
- Key Laboratory of Plant Resources and Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, 20 Nanxincun, Xiangshan, Beijing, 100093, China,
| | | |
Collapse
|
50
|
van Parijs FRD, Ruttink T, Boerjan W, Haesaert G, Byrne SL, Asp T, Roldán-Ruiz I, Muylle H. Clade classification of monolignol biosynthesis gene family members reveals target genes to decrease lignin in Lolium perenne. PLANT BIOLOGY (STUTTGART, GERMANY) 2015; 17:877-92. [PMID: 25683375 DOI: 10.1111/plb.12316] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2014] [Accepted: 01/19/2015] [Indexed: 05/08/2023]
Abstract
In monocots, lignin content has a strong impact on the digestibility of the cell wall fraction. Engineering lignin biosynthesis requires a profound knowledge of the role of paralogues in the multigene families that constitute the monolignol biosynthesis pathway. We applied a bioinformatics approach for genome-wide identification of candidate genes in Lolium perenne that are likely to be involved in the biosynthesis of monolignols. More specifically, we performed functional subtyping of phylogenetic clades in four multigene families: 4CL, COMT, CAD and CCR. Essential residues were considered for functional clade delineation within these families. This classification was complemented with previously published experimental evidence on gene expression, gene function and enzymatic activity in closely related crops and model species. This allowed us to assign functions to novel identified L. perenne genes, and to assess functional redundancy among paralogues. We found that two 4CL paralogues, two COMT paralogues, three CCR paralogues and one CAD gene are prime targets for genetic studies to engineer developmentally regulated lignin in this species. Based on the delineation of sequence conservation between paralogues and a first analysis of allelic diversity, we discuss possibilities to further study the roles of these paralogues in lignin biosynthesis, including expression analysis, reverse genetics and forward genetics, such as association mapping. We propose criteria to prioritise paralogues within multigene families and certain SNPs within these genes for developing genotyping assays or increasing power in association mapping studies. Although L. perenne was the target of the analyses presented here, this functional subtyping of phylogenetic clades represents a valuable tool for studies investigating monolignol biosynthesis genes in other monocot species.
Collapse
Affiliation(s)
- F R D van Parijs
- Plant Sciences Unit - Growth and Development, Institute for Agricultural and Fisheries Research (ILVO), Melle, Belgium
| | - T Ruttink
- Plant Sciences Unit - Growth and Development, Institute for Agricultural and Fisheries Research (ILVO), Melle, Belgium
| | - W Boerjan
- Department of Plant Systems Biology, VIB, Gent, Belgium
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium
| | - G Haesaert
- Faculty Bioscience Engineering, Department of Applied Biosciences, Ghent University, Gent, Belgium
| | - S L Byrne
- Department of Molecular Biology and Genetics, Research Centre Flakkebjerg, Aarhus University, Slagelse, Denmark
| | - T Asp
- Department of Molecular Biology and Genetics, Research Centre Flakkebjerg, Aarhus University, Slagelse, Denmark
| | - I Roldán-Ruiz
- Plant Sciences Unit - Growth and Development, Institute for Agricultural and Fisheries Research (ILVO), Melle, Belgium
| | - H Muylle
- Plant Sciences Unit - Growth and Development, Institute for Agricultural and Fisheries Research (ILVO), Melle, Belgium
| |
Collapse
|