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Yu R, Hou Q, Deng H, Xiao L, Cai X, Shang C, Qiao G. Overexpression of PavHIPP16 from Prunus avium enhances cold stress tolerance in transgenic tobacco. BMC PLANT BIOLOGY 2024; 24:536. [PMID: 38862890 PMCID: PMC11167810 DOI: 10.1186/s12870-024-05267-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2024] [Accepted: 06/07/2024] [Indexed: 06/13/2024]
Abstract
BACKGROUND The heavy metal-associated isoprenylated plant protein (HIPP) is an important regulatory element in response to abiotic stresses, especially playing a key role in low-temperature response. RESULTS This study investigated the potential function of PavHIPP16 up-regulated in sweet cherry under cold stress by heterologous overexpression in tobacco. The results showed that the overexpression (OE) lines' growth state was better than wild type (WT), and the germination rate, root length, and fresh weight of OE lines were significantly higher than those of WT. In addition, the relative conductivity and malondialdehyde (MDA) content of the OE of tobacco under low-temperature treatment were substantially lower than those of WT. In contrast, peroxidase (POD), superoxide dismutase (SOD), catalase (CAT) activities, hydrogen peroxide (H2O2), proline, soluble protein, and soluble sugar contents were significantly higher than those of WT. Yeast two-hybrid assay (Y2H) and luciferase complementation assay verified the interactions between PavbHLH106 and PavHIPP16, suggesting that these two proteins co-regulated the cold tolerance mechanism in plants. The research results indicated that the transgenic lines could perform better under low-temperature stress by increasing the antioxidant enzyme activity and osmoregulatory substance content of the transgenic plants. CONCLUSIONS This study provides genetic resources for analyzing the biological functions of PavHIPPs, which is important for elucidating the mechanisms of cold resistance in sweet cherry.
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Affiliation(s)
- Runrun Yu
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Qiandong Hou
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Hong Deng
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Ling Xiao
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Xiaowei Cai
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Chunqiong Shang
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China
| | - Guang Qiao
- Key Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), College of Life Sciences, Institute of Agro-bioengineering, Guizhou University, Guiyang, 550025, Guizhou Province, China.
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Gao S, Yin M, Xu M, Zhang H, Li S, Han Y, Ji S, Li X, Du G. Transcription factors PuPRE6/PuMYB12 and histone deacetylase PuHDAC9-like regulate sucrose levels in pear. PLANT PHYSIOLOGY 2024; 194:1577-1592. [PMID: 38006319 DOI: 10.1093/plphys/kiad628] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Revised: 09/29/2023] [Accepted: 09/29/2023] [Indexed: 11/27/2023]
Abstract
The improvement of fruit quality, in particular sugar content, has been a major goal of plant breeding programmes for many years. Here, 2 varieties of the Ussurian pear (Pyrus ussuriensis), Nanguo, and its high-sucrose accumulation bud sport, Nanhong, were used to study the molecular mechanisms regulating sucrose transport in fruits. Comparative transcriptome analysis showed that in Nanhong fruit, an MYB transcription factor, PuMYB12, and a sucrose transporter protein, PuSUT4-like, were expressed at higher levels, while a paclobutrazol resistance transcription factor, PuPRE6, and a histone deacetylase (HDAC), PuHDAC9-like, were expressed at lower levels in Nanguo fruit. PuSUT4-like silencing and overexpression experiments in Nanguo pear showed that PuSUT4-like is essential for sucrose transportation. PuPRE6 and PuMYB12 act as antagonistic complexes to regulate PuSUT4-like transcription and sucrose accumulation. The histone deacetylation levels of the PuMYB12 and PuSUT4-like promoters were higher in Nanguo fruit than in Nanhong fruit, and Y1H assays showed that HDAC PuHDAC9-like bound directly to the promoters of PuMYB12 and PuSUT4-like. Our results uncovered transcription regulation and epigenetic mechanisms underlying sucrose accumulation in pears.
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Affiliation(s)
- Siyang Gao
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Mingxin Yin
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Mingyang Xu
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - He Zhang
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Shuai Li
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Yinxiao Han
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
| | - Shujuan Ji
- Department of Food Science, Shenyang Agricultural University, Shenyang 110866, China
| | - Xinyue Li
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
- Department of Food Science, Shenyang Agricultural University, Shenyang 110866, China
| | - Guodong Du
- Key Laboratory of Fruit Postharvest Biology, Liaoning Province, College of Horticulture, Shenyang Agricultural University, Shenyang 110866, China
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Denoyes B, Prohaska A, Petit J, Rothan C. Deciphering the genetic architecture of fruit color in strawberry. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:6306-6320. [PMID: 37386925 PMCID: PMC10627153 DOI: 10.1093/jxb/erad245] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Accepted: 06/28/2023] [Indexed: 07/01/2023]
Abstract
Fruits of Fragaria species usually have an appealing bright red color due to the accumulation of anthocyanins, water-soluble flavonoid pigments. Octoploid cultivated strawberry (Fragaria × ananassa) is a major horticultural crop for which fruit color and associated nutritional value are main breeding targets. Great diversity in fruit color intensity and pattern is observed not only in cultivated strawberry but also in wild relatives such as its octoploid progenitor F. chiloensis or the diploid woodland strawberry F. vesca, a model for fruit species in the Rosaceae. This review examines our understanding of fruit color formation in strawberry and how ongoing developments will advance it. Natural variations of fruit color as well as color changes during fruit development or in response to several cues have been used to explore the anthocyanin biosynthetic pathway and its regulation. So far, the successful identification of causal genetic variants has been largely driven by the availability of high-throughput genotyping tools and high-quality reference genomes of F. vesca and F. × ananassa. The current completion of haplotype-resolved genomes of F. × ananassa combined with QTL mapping will accelerate the exploitation of the untapped genetic diversity of fruit color and help translate the findings into strawberry improvement.
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Affiliation(s)
- Béatrice Denoyes
- INRAE and Univ. of Bordeaux, UMR 1332 Biologie du Fruit et Pathologie, F-33140 Villenave d’Ornon, France
| | - Alexandre Prohaska
- INRAE and Univ. of Bordeaux, UMR 1332 Biologie du Fruit et Pathologie, F-33140 Villenave d’Ornon, France
- INVENIO, MIN de Brienne, Bordeaux, France
| | - Johann Petit
- INRAE and Univ. of Bordeaux, UMR 1332 Biologie du Fruit et Pathologie, F-33140 Villenave d’Ornon, France
| | - Christophe Rothan
- INRAE and Univ. of Bordeaux, UMR 1332 Biologie du Fruit et Pathologie, F-33140 Villenave d’Ornon, France
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Wang A, Ma H, Zhang X, Zhang B, Li F. Transcriptomic analysis reveals the mechanism underlying the anthocyanin changes in Fragaria nilgerrensis Schlecht. and its interspecific hybrids. BMC PLANT BIOLOGY 2023; 23:356. [PMID: 37434140 DOI: 10.1186/s12870-023-04361-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 06/22/2023] [Indexed: 07/13/2023]
Abstract
BACKGROUND Fragaria nilgerrensis (FN) provides a rich source of genetic variations for strawberry germplasm innovation. The color of strawberry fruits is a key factor affecting consumer preferences. However, the genetic basis of the fruit color formation in F. nilgerrensis and its interspecific hybrids has rarely been researched. RESULTS In this study, the fruit transcriptomes and flavonoid contents of FN (white skin; control) and its interspecific hybrids BF1 and BF2 (pale red skin) were compared. A total of 31 flavonoids were identified. Notably, two pelargonidin derivatives (pelargonidin-3-O-glucoside and pelargonidin-3-O-rutinoside) were revealed as potential key pigments for the coloration of BF1 and BF2 fruits. Additionally, dihydroflavonol 4-reductase (DFR) (LOC101293459 and LOC101293749) and anthocyanidin 3-O-glucosyltransferase (BZ1) (LOC101300000), which are crucial structural genes in the anthocyanidin biosynthetic pathway, had significantly up-regulated expression levels in the two FN interspecific hybrids. Moreover, most of the genes encoding transcription factors (e.g., MYB, WRKY, TCP, bHLH, AP2, and WD40) related to anthocyanin accumulation were differentially expressed. We also identified two DFR genes (LOC101293749 and LOC101293459) that were significantly correlated with members in bHLH, MYB, WD40, AP2, and bZIP families. Two chalcone synthase (CHS) (LOC101298162 and LOC101298456) and a BZ1 gene (LOC101300000) were highly correlated with members in bHLH, WD40 and AP2 families. CONCLUSIONS Pelargonidin-3-O-glucoside and pelargonidin-3-O-rutinoside may be the key pigments contributing to the formation of pale red fruit skin. DFR and BZ1 structural genes and some bHLH, MYB, WD40, AP2, and bZIP TF family members enhance the accumulation of two pelargonidin derivatives. This study provides important insights into the regulation of anthocyanidin biosynthesis in FN and its interspecific hybrids. The presented data may be relevant for improving strawberry fruit coloration via genetic engineering.
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Affiliation(s)
- Aihua Wang
- School of Biological and Food Engineering, Engineering Research Center for Development and High Value Utilization of Genuine Medicinal Materials in North Anhui Province, Suzhou University, Suzhou, 234000, Anhui, China
- Horticulture Institute (Guizhou Horticultural Engineering Technology Research Caenter), Guizhou Academy of Agricultural Sciences, Guiyang, 550006, China
| | - Hongye Ma
- Horticulture Institute (Guizhou Horticultural Engineering Technology Research Caenter), Guizhou Academy of Agricultural Sciences, Guiyang, 550006, China
| | - Xingtao Zhang
- School of Biological and Food Engineering, Engineering Research Center for Development and High Value Utilization of Genuine Medicinal Materials in North Anhui Province, Suzhou University, Suzhou, 234000, Anhui, China
| | - Baohui Zhang
- Horticulture Institute (Guizhou Horticultural Engineering Technology Research Caenter), Guizhou Academy of Agricultural Sciences, Guiyang, 550006, China
| | - Fei Li
- Horticulture Institute (Guizhou Horticultural Engineering Technology Research Caenter), Guizhou Academy of Agricultural Sciences, Guiyang, 550006, China.
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Zhang Z, Fang J, Zhang L, Jin H, Fang S. Genome-wide identification of bHLH transcription factors and their response to salt stress in Cyclocarya paliurus. FRONTIERS IN PLANT SCIENCE 2023; 14:1117246. [PMID: 36968403 PMCID: PMC10035414 DOI: 10.3389/fpls.2023.1117246] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 02/20/2023] [Indexed: 06/18/2023]
Abstract
As a highly valued and multiple function tree species, the leaves of Cyclocarya paliurus are enriched in diverse bioactive substances with healthy function. To meet the requirement for its leaf production and medical use, the land with salt stress would be a potential resource for developing C. paliurus plantations due to the limitation of land resources in China. The basic helix-loop-helix (bHLH) transcription factor protein family, the second largest protein family in plants, has been found to play essential roles in the response to multiple abiotic stresses, especially salt stress. However, the bHLH gene family in C.paliurus has not been investigated. In this study, 159 CpbHLH genes were successfully identified from the whole-genome sequence data, and were classified into 26 subfamilies. Meanwhile, the 159 members were also analyzed from the aspects of protein sequences alignment, evolution, motif prediction, promoter cis-acting elements analysis and DNA binding ability. Based on transcriptome profiling under a hydroponic experiment with four salt concentrations (0%, 0.15%, 0.3%, and 0.45% NaCl), 9 significantly up- or down-regulated genes were screened, while 3 genes associated with salt response were selected in term of the GO annotation results. Totally 12 candidate genes were selected in response to salt stress. Moreover, based on expression analysis of the 12 candidate genes sampled from a pot experiment with three salt concentrations (0%, 0.2% and 0.4% NaCl), CpbHLH36/68/146 were further verified to be involved in the regulation of salt tolerance genes, which is also confirmed by protein interaction network analysis. This study was the first analysis of the transcription factor family at the genome-wide level of C. paliurus, and our findings would not only provide insight into the function of the CpbHLH gene family members involved in salt stress but also drive progress in genetic improvement for the salt tolerance of C. paliurus.
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Affiliation(s)
- Zijie Zhang
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Jie Fang
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Lei Zhang
- College of Forestry, Nanjing Forestry University, Nanjing, China
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing, China
| | - Huiyin Jin
- College of Forestry, Nanjing Forestry University, Nanjing, China
| | - Shengzuo Fang
- College of Forestry, Nanjing Forestry University, Nanjing, China
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing, China
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Sánchez-Gómez C, Posé D, Martín-Pizarro C. Insights into transcription factors controlling strawberry fruit development and ripening. FRONTIERS IN PLANT SCIENCE 2022; 13:1022369. [PMID: 36299782 PMCID: PMC9589285 DOI: 10.3389/fpls.2022.1022369] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Accepted: 09/21/2022] [Indexed: 06/16/2023]
Abstract
Fruit ripening is a highly regulated and complex process involving a series of physiological and biochemical changes aiming to maximize fruit organoleptic traits to attract herbivores, maximizing therefore seed dispersal. Furthermore, this process is of key importance for fruit quality and therefore consumer acceptance. In fleshy fruits, ripening involves an alteration in color, in the content of sugars, organic acids and secondary metabolites, such as volatile compounds, which influence flavor and aroma, and the remodeling of cell walls, resulting in the softening of the fruit. The mechanisms underlying these processes rely on the action of phytohormones, transcription factors and epigenetic modifications. Strawberry fruit is considered a model of non-climacteric species, as its ripening is mainly controlled by abscisic acid. Besides the role of phytohormones in the regulation of strawberry fruit ripening, a number of transcription factors have been identified as important regulators of these processes to date. In this review, we present a comprehensive overview of the current knowledge on the role of transcription factors in the regulation of strawberry fruit ripening, as well as in compiling candidate regulators that might play an important role but that have not been functionally studied to date.
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Affiliation(s)
| | - David Posé
- *Correspondence: David Posé, ; Carmen Martín-Pizarro,
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Genome-Wide Analysis of the ERF Family and Identification of Potential Genes Involved in Fruit Ripening in Octoploid Strawberry. Int J Mol Sci 2022; 23:ijms231810550. [PMID: 36142464 PMCID: PMC9502190 DOI: 10.3390/ijms231810550] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 08/31/2022] [Accepted: 09/06/2022] [Indexed: 11/16/2022] Open
Abstract
Ethylene response factors (ERFs) belonging to the APETALA2/ERF superfamily acted at the end of the ethylene signaling pathway, and they were found to play important roles in plant growth and development. However, the information of ERF genes in strawberry and their involvement in fruit ripening have been limited. Here, a total of 235 ERF members were identified from 426 AP2/ERF genes at octoploid strawberry genome level and classified into six subgroups according to their sequence characteristics and phylogenetic relationship. Conserved motif and gene structure analysis supported the evolutionary conservation of FaERFs. Syntenic analysis showed that four types of duplication events occurred during the expansion of FaERF gene family. Of these, WGD/segmental duplication played a major role. Transcriptomic data of FaERF genes during fruit ripening and in response to abscisic acid screened one activator (FaERF316) and one repressor (FaERF118) that were involved in fruit ripening. Transcriptional regulation analysis showed some transcription factors related to ripening such as ABI4, TCP15, and GLK1 could bind to FaERF316 or FaERF118 promoters, while protein-protein interaction analysis displayed some proteins associated with plant growth and development could interact with FaERF118 or FaERF316. These results suggested that FaERF118 and FaERF316 were potential genes to regulate strawberry ripening. In summary, the present study provides the comprehensive and systematic information on FaERF family evolution and gains insights into FaERF's potential regulatory mechanism in strawberry ripening.
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Liao X, Ye Y, Zhang X, Peng D, Hou M, Fu G, Tan J, Zhao J, Jiang R, Xu Y, Liu J, Yang J, Liu W, Tembrock LR, Zhu G, Wu Z. The genomic and bulked segregant analysis of Curcuma alismatifolia revealed its diverse bract pigmentation. ABIOTECH 2022; 3:178-196. [PMID: 36304840 PMCID: PMC9590460 DOI: 10.1007/s42994-022-00081-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 09/05/2022] [Indexed: 11/15/2022]
Abstract
Compared with most flowers where the showy part comprises specialized leaves (petals) directly subtending the reproductive structures, most Zingiberaceae species produce showy "flowers" through modifications of leaves (bracts) subtending the true flowers throughout an inflorescence. Curcuma alismatifolia, belonging to the Zingiberaceae family, a plant species originating from Southeast Asia, has become increasingly popular in the flower market worldwide because of its varied and esthetically pleasing bracts produced in different cultivars. Here, we present the chromosome-scale genome assembly of C. alismatifolia "Chiang Mai Pink" and explore the underlying mechanisms of bract pigmentation. Comparative genomic analysis revealed C. alismatifolia contains a residual signal of whole-genome duplication. Duplicated genes, including pigment-related genes, exhibit functional and structural differentiation resulting in diverse bract colors among C. alismatifolia cultivars. In addition, we identified the key genes that produce different colored bracts in C. alismatifolia, such as F3'5'H, DFR, ANS and several transcription factors for anthocyanin synthesis, as well as chlH and CAO in the chlorophyll synthesis pathway by conducting transcriptomic analysis, bulked segregant analysis using both DNA and RNA data, and population genomic analysis. This work provides data for understanding the mechanism of bract pigmentation and will accelerate breeding in developing novel cultivars with richly colored bracts in C. alismatifolia and related species. It is also important to understand the variation in the evolution of the Zingiberaceae family. Supplementary Information The online version contains supplementary material available at 10.1007/s42994-022-00081-6.
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Affiliation(s)
- Xuezhu Liao
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Yuanjun Ye
- Guangdong Provincial Key Lab of Ornamental Plant Germplasm Innovation and Utilization, Environmental Horticulture Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Xiaoni Zhang
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Dan Peng
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Mengmeng Hou
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Gaofei Fu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Jianjun Tan
- Guangdong Provincial Key Lab of Ornamental Plant Germplasm Innovation and Utilization, Environmental Horticulture Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Jianli Zhao
- Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology, Yunnan University, Kunming, 650504 China
| | - Rihong Jiang
- Guangxi Engineering and Technology Research Center for Woody Spices, Guangxi Key Laboratory for Cultivation and Utilization of Special Non-Timber Forest Crops, Guangxi Forestry Research Institute, Nanning, 530002 China
| | - Yechun Xu
- Guangdong Provincial Key Lab of Ornamental Plant Germplasm Innovation and Utilization, Environmental Horticulture Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Jinmei Liu
- Guangdong Provincial Key Lab of Ornamental Plant Germplasm Innovation and Utilization, Environmental Horticulture Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Jinliang Yang
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE 68583 USA
| | - Wusheng Liu
- Department of Horticultural Science, North Carolina State University, Raleigh, NC 27607 USA
| | - Luke R Tembrock
- Department of Agricultural Biology, Colorado State University, Fort Collins, CO 80523 USA
| | - Genfa Zhu
- Guangdong Provincial Key Lab of Ornamental Plant Germplasm Innovation and Utilization, Environmental Horticulture Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640 China
| | - Zhiqiang Wu
- Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China.,Kunpeng Institute of Modern Agriculture at Foshan, Foshan, 528200 China
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9
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Overexpression of AcEXPA23 Promotes Lateral Root Development in Kiwifruit. Int J Mol Sci 2022; 23:ijms23148026. [PMID: 35887372 PMCID: PMC9317778 DOI: 10.3390/ijms23148026] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 07/15/2022] [Accepted: 07/15/2022] [Indexed: 12/12/2022] Open
Abstract
Kiwifruit is loved by consumers for its unique taste and rich vitamin C content. Kiwifruit are very sensitive to adverse soil environments owing to fleshy and shallow roots, which limits the uptake of water and nutrients into the root system, resulting in low yield and poor fruit quality. Lateral roots are the key organs for plants to absorb water and nutrients. Improving water and fertilizer use efficiency by promoting lateral root development is a feasible method to improve yield and quality. Expansin proteins plays a major role in lateral root growth; hence, it is important to identify expansin protein family members, screen key genes, and explore gene function in root development. In this study, 41 expansin genes were identified based on the genome of kiwifruit (‘Hongyang’, Actinidia chinensis). By clustering with the Arabidopsis thaliana expansin protein family, the 41 AcExpansin proteins were divided into four subfamilies. The AcExpansin protein family was further analysed by bioinformatics methods and was shown to be evolutionarily diverse and conserved at the DNA and protein levels. Based on previous transcriptome data and quantitative real-time PCR assays, we screened the candidate gene AcEXPA23. Overexpression of AcEXPA23 in kiwifruit increased the number of kiwifruit lateral roots.
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Garrido-Gala J, Higuera JJ, Rodríguez-Franco A, Muñoz-Blanco J, Amil-Ruiz F, Caballero JL. A Comprehensive Study of the WRKY Transcription Factor Family in Strawberry. PLANTS 2022; 11:plants11121585. [PMID: 35736736 PMCID: PMC9229891 DOI: 10.3390/plants11121585] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Revised: 06/10/2022] [Accepted: 06/11/2022] [Indexed: 11/16/2022]
Abstract
WRKY transcription factors play critical roles in plant growth and development or stress responses. Using up-to-date genomic data, a total of 64 and 257 WRKY genes have been identified in the diploid woodland strawberry, Fragaria vesca, and the more complex allo-octoploid commercial strawberry, Fragaria × ananassa cv. Camarosa, respectively. The completeness of the new genomes and annotations has enabled us to perform a more detailed evolutionary and functional study of the strawberry WRKY family members, particularly in the case of the cultivated hybrid, in which homoeologous and paralogous FaWRKY genes have been characterized. Analysis of the available expression profiles has revealed that many strawberry WRKY genes show preferential or tissue-specific expression. Furthermore, significant differential expression of several FaWRKY genes has been clearly detected in fruit receptacles and achenes during the ripening process and pathogen challenged, supporting a precise functional role of these strawberry genes in such processes. Further, an extensive analysis of predicted development, stress and hormone-responsive cis-acting elements in the strawberry WRKY family is shown. Our results provide a deeper and more comprehensive knowledge of the WRKY gene family in strawberry.
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Affiliation(s)
| | - José-Javier Higuera
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
| | - Francisco Amil-Ruiz
- Unidad de Bioinformática, Servicio Central de Apoyo a la Investigación (SCAI), Universidad de Córdoba, 14071 Córdoba, Spain;
| | - José L. Caballero
- Departamento de Bioquímica y Biología Molecular, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario ceiA3, Edificio Severo Ochoa-C6, Universidad de Córdoba, 14071 Córdoba, Spain; (J.-J.H.); (A.R.-F.); (J.M.-B.)
- Correspondence:
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11
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Dekomah SD, Wang Y, Qin T, Xu D, Sun C, Yao P, Liu Y, Bi Z, Bai J. Identification and Expression Analysis of Calcium-Dependent Protein Kinases Gene Family in Potato Under Drought Stress. Front Genet 2022; 13:874397. [PMID: 35669192 PMCID: PMC9164159 DOI: 10.3389/fgene.2022.874397] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2022] [Accepted: 04/20/2022] [Indexed: 12/13/2022] Open
Abstract
Calcium-dependent protein kinases (CDPKs) are a class of serine/threonine protein kinases encoded by several gene families that play key roles in stress response and plant growth and development. In this study, the BLAST method was used to search for protein sequences of the potato Calcium-dependent protein kinase gene family. The chromosome location, phylogeny, gene structures, gene duplication, cis-acting elements, protein-protein interaction, and expression profiles were analyzed. Twenty-five CDPK genes in the potato genome were identified based on RNA-seq data and were clustered into four groups (I-IV) based on their structural features and phylogenetic analysis. The result showed the composition of the promoter region of the StCDPKs gene, including light-responsive elements such as Box4, hormone-responsive elements such as ABRE, and stress-responsive elements such as MBS. Four pairs of segmental duplications were found in StCDPKs genes and the Ka/Ks ratios were below 1, indicating a purifying selection of the genes. The protein-protein interaction network revealed defense-related proteins such as; respiratory burst oxidase homologs (RBOHs) interacting with potato CDPKs. Transcript abundance was measured via RT-PCR between the two cultivars and their relative expression of CDPK genes was analyzed after 15, 20, and 25 days of drought. There were varied expression patterns of StCDPK3/13/21 and 23, between the two potato cultivars under mannitol induced-drought conditions. Correlation analysis showed that StCDPK21/22 and StCDPK3 may be the major differentially expressed genes involved in the regulation of malondialdehyde (MDA) and proline content in response to drought stress, opening a new research direction for genetic improvement of drought resistance in potato.
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Affiliation(s)
- Simon Dontoro Dekomah
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Yihao Wang
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Tianyuan Qin
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Derong Xu
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Chao Sun
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Panfeng Yao
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Yuhui Liu
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
| | - Zhenzhen Bi
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
- *Correspondence: Zhenzhen Bi, ; Jiangping Bai,
| | - Jiangping Bai
- College of Agronomy, Gansu Agricultural University, Lanzhou, China
- Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou, China
- *Correspondence: Zhenzhen Bi, ; Jiangping Bai,
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Yang J, Chen Y, Gao M, Wu L, Xiong S, Wang S, Gao J, Zhao Y, Wang Y. Comprehensive identification of bHLH transcription factors in Litsea cubeba reveals candidate gene involved in the monoterpene biosynthesis pathway. FRONTIERS IN PLANT SCIENCE 2022; 13:1081335. [PMID: 36618662 PMCID: PMC9811127 DOI: 10.3389/fpls.2022.1081335] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Accepted: 11/21/2022] [Indexed: 05/13/2023]
Abstract
Litsea cubeba (Lour.) Person, an economically important aromatic plant producing essential oils, has lemon-like fragrance and 96.44-98.44% monoterpene contents. bHLH transcription factor plays an important role in plant secondary metabolism and terpene biosynthesis. In this study, we used bioinformatics to identify bHLH transcription factors in L. cubeba, 173 bHLH genes were identified from L. cubeba and divided these into 26 subfamilies based on phylogenetic analysis. The majority of bHLHs in each subfamily shared comparable structures and motifs. While LcbHLHs were unevenly distributed across 12 chromosomes, 10 tandem repeats were discovered. Expression profiles of bHLH genes in different tissues demonstrated that LcbHLH78 is a potential candidate gene for regulating monoterpene biosynthesis. LcbHLH78 and the terpene synthase LcTPS42 showed comparable expression patterns in various tissues and fruit development stages of L. cubeba. Subcellular localization analysis revealed that LcbHLH78 protein localizes to the nucleus, consistent with a transcription factor function. Importantly, transient overexpression of LcbHLH78 increased geraniol and linalol contents. Our research demonstrates that LcbHLH78 enhances terpenoid biosynthesis. This finding will be beneficial for improving the quality of L. cubeba and provides helpful insights for further research into the control mechanism of LcbHLH genes over terpenoid biosynthesis.
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Affiliation(s)
- Jiahui Yang
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Yicun Chen
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Ming Gao
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Liwen Wu
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Shifa Xiong
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Siqi Wang
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Jing Gao
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
| | - Yunxiao Zhao
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
- *Correspondence: Yunxiao Zhao, ; Yangdong Wang,
| | - Yangdong Wang
- State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, China
- Research Institute of Subtropical Forestry, Chinese Academy of Forestry, HangZhou, Zhejiang, China
- *Correspondence: Yunxiao Zhao, ; Yangdong Wang,
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13
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Tan C, Qiao H, Ma M, Wang X, Tian Y, Bai S, Hasi A. Genome-Wide Identification and Characterization of Melon bHLH Transcription Factors in Regulation of Fruit Development. PLANTS 2021; 10:plants10122721. [PMID: 34961193 PMCID: PMC8709311 DOI: 10.3390/plants10122721] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/01/2021] [Revised: 11/25/2021] [Accepted: 12/06/2021] [Indexed: 11/16/2022]
Abstract
The basic helix-loop-helix (bHLH) transcription factor family is one of the largest transcription factor families in plants and plays crucial roles in plant development. Melon is an important horticultural plant as well as an attractive model plant for studying fruit ripening. However, the bHLH gene family of melon has not yet been identified, and its functions in fruit growth and ripening are seldom researched. In this study, 118 bHLH genes were identified in the melon genome. These CmbHLH genes were unevenly distributed on chromosomes 1 to 12, and five CmbHLHs were tandem repeat on chromosomes 4 and 8. There were 13 intron distribution patterns among the CmbHLH genes. Phylogenetic analysis illustrated that these CmbHLHs could be classified into 16 subfamilies. Expression patterns of the CmbHLH genes were studied using transcriptome data. Tissue specific expression of the CmbHLH32 gene was analysed by quantitative RT-PCR. The results showed that the CmbHLH32 gene was highly expressed in female flower and early developmental stage fruit. Transgenic melon lines overexpressing CmbHLH32 were generated, and overexpression of CmbHLH32 resulted in early fruit ripening compared to wild type. The CmbHLH transcription factor family was identified and analysed for the first time in melon, and overexpression of CmbHLH32 affected the ripening time of melon fruit. These findings laid a foundation for further study on the role of bHLH family members in the growth and development of melon.
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Affiliation(s)
- Chao Tan
- Key Laboratory of Herbage & Endemic Crop Biology, Ministry of Education, School of Life Sciences, Inner Mongolia University, Hohhot 010070, China; (C.T.); (H.Q.); (M.M.); (Y.T.)
- Department of Plant Biology and Ecology, College of Life Sciences, Nankai University, Tianjin 300071, China;
| | - Huilei Qiao
- Key Laboratory of Herbage & Endemic Crop Biology, Ministry of Education, School of Life Sciences, Inner Mongolia University, Hohhot 010070, China; (C.T.); (H.Q.); (M.M.); (Y.T.)
| | - Ming Ma
- Key Laboratory of Herbage & Endemic Crop Biology, Ministry of Education, School of Life Sciences, Inner Mongolia University, Hohhot 010070, China; (C.T.); (H.Q.); (M.M.); (Y.T.)
| | - Xue Wang
- Department of Plant Biology and Ecology, College of Life Sciences, Nankai University, Tianjin 300071, China;
| | - Yunyun Tian
- Key Laboratory of Herbage & Endemic Crop Biology, Ministry of Education, School of Life Sciences, Inner Mongolia University, Hohhot 010070, China; (C.T.); (H.Q.); (M.M.); (Y.T.)
| | - Selinge Bai
- Medical College, Inner Mongolia MINZU University, Tongliao 028000, China
- Correspondence: (S.B.); (A.H.)
| | - Agula Hasi
- Key Laboratory of Herbage & Endemic Crop Biology, Ministry of Education, School of Life Sciences, Inner Mongolia University, Hohhot 010070, China; (C.T.); (H.Q.); (M.M.); (Y.T.)
- Correspondence: (S.B.); (A.H.)
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Li M, Wu Z, Gu H, Cheng D, Guo X, Li L, Shi C, Xu G, Gu S, Abid M, Zhong Y, Qi X, Chen J. AvNAC030, a NAC Domain Transcription Factor, Enhances Salt Stress Tolerance in Kiwifruit. Int J Mol Sci 2021; 22:ijms222111897. [PMID: 34769325 PMCID: PMC8585034 DOI: 10.3390/ijms222111897] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 10/29/2021] [Accepted: 10/30/2021] [Indexed: 01/21/2023] Open
Abstract
Kiwifruit (Actinidia chinensis Planch) is suitable for neutral acid soil. However, soil salinization is increasing in kiwifruit production areas, which has adverse effects on the growth and development of plants, leading to declining yields and quality. Therefore, analyzing the salt tolerance regulation mechanism can provide a theoretical basis for the industrial application and germplasm improvement of kiwifruit. We identified 120 NAC members and divided them into 13 subfamilies according to phylogenetic analysis. Subsequently, we conducted a comprehensive and systematic analysis based on the conserved motifs, key amino acid residues in the NAC domain, expression patterns, and protein interaction network predictions and screened the candidate gene AvNAC030. In order to study its function, we adopted the method of heterologous expression in Arabidopsis. Compared with the control, the overexpression plants had higher osmotic adjustment ability and improved antioxidant defense mechanism. These results suggest that AvNAC030 plays a positive role in the salt tolerance regulation mechanism in kiwifruit.
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Affiliation(s)
- Ming Li
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
- Correspondence: (M.L.); (M.A.)
| | - Zhiyong Wu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Hong Gu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Dawei Cheng
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Xizhi Guo
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Lan Li
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Caiyun Shi
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Guoyi Xu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Shichao Gu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Muhammad Abid
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China
- Correspondence: (M.L.); (M.A.)
| | - Yunpeng Zhong
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Xiujuan Qi
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
| | - Jinyong Chen
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (Z.W.); (H.G.); (D.C.); (X.G.); (L.L.); (C.S.); (G.X.); (S.G.); (Y.Z.); (X.Q.); (J.C.)
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15
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Li M, Chen R, Gu H, Cheng D, Guo X, Shi C, Li L, Xu G, Gu S, Wu Z, Chen J. Grape Small Auxin Upregulated RNA ( SAUR) 041 Is a Candidate Regulator of Berry Size in Grape. Int J Mol Sci 2021; 22:ijms222111818. [PMID: 34769249 PMCID: PMC8584205 DOI: 10.3390/ijms222111818] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 10/29/2021] [Accepted: 10/29/2021] [Indexed: 11/25/2022] Open
Abstract
Grape (Vitis vinifera) is an important horticultural crop that can be used to make juice and wine. However, the small size of the berry limits its yield. Cultivating larger berry varieties can be an effective way to solve this problem. As the largest family of auxin early response genes, SAUR (small auxin upregulated RNA) plays an important role in the growth and development of plants. Berry size is one of the important factors that determine grape quality. However, the SAUR gene family’s function in berry size of grape has not been studied systematically. We identified 60 SAUR members in the grape genome and divided them into 12 subfamilies based on phylogenetic analysis. Subsequently, we conducted a comprehensive and systematic analysis on the SAUR gene family by analyzing distribution of key amino acid residues in the domain, structural features, conserved motifs, and protein interaction network, and combined with the heterologous expression in Arabidopsis and tomato. Finally, the member related to grape berry size in SAUR gene family were screened. This genome-wide study provides a systematic analysis of grape SAUR gene family, further understanding the potential functions of candidate genes, and provides a new idea for grape breeding.
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Affiliation(s)
- Ming Li
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Rui Chen
- Biotechnology Research Institute, Tianjin Academy of Agricultural Sciences, Tianjin 300192, China;
| | - Hong Gu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Dawei Cheng
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Xizhi Guo
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Caiyun Shi
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Lan Li
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Guoyi Xu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Shicao Gu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Zhiyong Wu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
| | - Jinyong Chen
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (M.L.); (H.G.); (D.C.); (X.G.); (C.S.); (L.L.); (G.X.); (S.G.); (Z.W.)
- Correspondence:
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16
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Yi G, Shin H, Min K, Lee EJ. Expanded transcriptomic view of strawberry fruit ripening through meta-analysis. PLoS One 2021; 16:e0252685. [PMID: 34061906 PMCID: PMC8168840 DOI: 10.1371/journal.pone.0252685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Accepted: 05/20/2021] [Indexed: 11/19/2022] Open
Abstract
Strawberry is an important fruit crop and a model for studying non-climacteric fruit ripening. Fruit ripening and senescence influence strawberry fruit quality and postharvest storability, and have been intensively studied. However, genetic and physiological differences among cultivars preclude consensus understanding of these processes. We therefore performed a meta-analysis by mapping existing transcriptome data to the newly published and improved strawberry reference genome and extracted meta-differentially expressed genes (meta-DEGs) from six cultivars to provide an expanded transcriptomic view of strawberry ripening. We identified cultivar-specific transcriptome changes in anthocyanin biosynthesis-related genes and common changes in cell wall degradation, chlorophyll degradation, and starch metabolism-related genes during ripening. We also identified 483 meta-DEGs enriched in gene ontology categories related to photosynthesis and amino acid and fatty acid biosynthesis that had not been revealed in previous studies. We conclude that meta-analysis of existing transcriptome studies can effectively address fundamental questions in plant sciences.
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Affiliation(s)
- Gibum Yi
- Department of Bio-Environmental Chemistry, College of Agriculture and Life Sciences, Chungnam National University, Daejoen, Korea
| | - Hosub Shin
- Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Sciences, Seoul National University, Seoul, Korea
| | - Kyeonglim Min
- Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Sciences, Seoul National University, Seoul, Korea
| | - Eun Jin Lee
- Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Sciences, Seoul National University, Seoul, Korea.,Research Institute of Agriculture and Life Sciences, Seoul National University, Seoul, Korea
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Medina-Puche L, Martínez-Rivas FJ, Molina-Hidalgo FJ, García-Gago JA, Mercado JA, Caballero JL, Muñoz-Blanco J, Blanco-Portales R. Ectopic expression of the atypical HLH FaPRE1 gene determines changes in cell size and morphology. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 305:110830. [PMID: 33691964 DOI: 10.1016/j.plantsci.2021.110830] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Revised: 01/13/2021] [Accepted: 01/16/2021] [Indexed: 05/22/2023]
Abstract
PACLOBUTRAZOL RESISTANCE (PRE) genes code atypical HLH transcriptional regulators characterized by the absence of a DNA-binding domain but present an HLH dimerization domain. In vegetative tissues, the function of these HLH proteins has been related with cell elongation processes. In strawberry, three FaPRE genes are expressed, two of them (FaPRE2 and FaPRE3) in vegetative tissues while FaPRE1 is fruit receptacle-specific. Ubiquitous FaPRE1 accumulation produced elongated flower receptacles and plants due to the elongation of the main aerial vegetative organs, with the exception of leaves. Histological analysis clearly demonstrated that the observed phenotype was due to significant changes in the parenchymal cell's morphology. In addition, transcriptomic studies of the transgenic elongated flower receptacles allowed to identify a small group of differentially expressed genes that encode cell wall-modifying enzymes. Together, the data seem to indicate that, in the strawberry plant vegetative organs, FaPRE proteins could modulate the expression of genes related with the determination of the size and shape of the parenchymal cells.
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Affiliation(s)
- L Medina-Puche
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
| | - F J Martínez-Rivas
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
| | - F J Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
| | - J A García-Gago
- Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain.
| | - J A Mercado
- Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain.
| | - J L Caballero
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
| | - J Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
| | - R Blanco-Portales
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain.
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18
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Aničić N, Patelou E, Papanikolaou A, Kanioura A, Valdesturli C, Arapitsas P, Skorić M, Dragićević M, Gašić U, Koukounaras A, Kostas S, Sarrou E, Martens S, Mišić D, Kanellis A. Comparative Metabolite and Gene Expression Analyses in Combination With Gene Characterization Revealed the Patterns of Flavonoid Accumulation During Cistus creticus subsp. creticus Fruit Development. FRONTIERS IN PLANT SCIENCE 2021; 12:619634. [PMID: 33841455 PMCID: PMC8034662 DOI: 10.3389/fpls.2021.619634] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
Cistus creticus L. subsp. creticus (rockrose) is a shrub widespread in Greece and the Mediterranean basin and has been used in traditional medicine as herb tea for colds, for healing and digestive hitches, for the treatment of maladies, as perfumes, and for other purposes. Compounds from its flavonoid fraction have recently drawn attention due to antiviral action against influenza virus and HIV. Although several bioactive metabolites belonging to this group have been chemically characterized in the leaves, the genes involved in their biosynthesis in Cistus remain largely unknown. Flavonoid metabolism during C. creticus fruit development was studied by adopting comparative metabolomic and transcriptomic approaches. The present study highlights the fruit of C. creticus subsp. creticus as a rich source of flavonols, flavan-3-ols, and proanthocyanidins, all of which displayed a decreasing trend during fruit development. The majority of proanthocyanidins recorded in Cistus fruit are B-type procyanidins and prodelphinidins, while gallocatechin and catechin are the dominant flavan-3-ols. The expression patterns of biosynthetic genes and transcription factors were analyzed in flowers and throughout three fruit development stages. Flavonoid biosynthetic genes were developmentally regulated, showing a decrease in transcript levels during fruit maturation. A high degree of positive correlations between the content of targeted metabolites and the expression of biosynthetic genes indicated the transcriptional regulation of flavonoid biosynthesis during C. creticus fruit development. This is further supported by the high degree of significant positive correlations between the expression of biosynthetic genes and transcription factors. The results suggest that leucoanthocyanidin reductase predominates the biosynthetic pathway in the control of flavan-3-ol formation, which results in catechin and gallocatechin as two of the major building blocks for Cistus proanthocyanidins. Additionally, there is a decline in ethylene production rates during non-climacteric Cistus fruit maturation, which coincides with the downregulation of the majority of flavonoid- and ethylene-related biosynthetic genes and corresponding transcription factors as well as with the decline in flavonoid content. Finally, functional characterization of a Cistus flavonoid hydroxylase (F3'5'H) was performed for the first time.
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Affiliation(s)
- Neda Aničić
- Group of Biotechnology of Pharmaceutical Plants, Laboratory of Pharmacognosy, Department of Pharmaceutical Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Department of Plant Physiology, Institute for Biological Research “Siniša Stanković”-National Institute of Republic of Serbia, University of Belgrade, Belgrade, Serbia
| | - Efstathia Patelou
- Group of Biotechnology of Pharmaceutical Plants, Laboratory of Pharmacognosy, Department of Pharmaceutical Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Antigoni Papanikolaou
- Group of Biotechnology of Pharmaceutical Plants, Laboratory of Pharmacognosy, Department of Pharmaceutical Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Anthi Kanioura
- Group of Biotechnology of Pharmaceutical Plants, Laboratory of Pharmacognosy, Department of Pharmaceutical Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Camilla Valdesturli
- Research and Innovation Centre, Fondazione Edmund Mach, San Michele all’Adige, Italy
| | - Panagiotis Arapitsas
- Research and Innovation Centre, Fondazione Edmund Mach, San Michele all’Adige, Italy
| | - Marijana Skorić
- Department of Plant Physiology, Institute for Biological Research “Siniša Stanković”-National Institute of Republic of Serbia, University of Belgrade, Belgrade, Serbia
| | - Milan Dragićević
- Department of Plant Physiology, Institute for Biological Research “Siniša Stanković”-National Institute of Republic of Serbia, University of Belgrade, Belgrade, Serbia
| | - Uroš Gašić
- Department of Plant Physiology, Institute for Biological Research “Siniša Stanković”-National Institute of Republic of Serbia, University of Belgrade, Belgrade, Serbia
| | - Athanasios Koukounaras
- Department of Horticulture, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Stefanos Kostas
- Department of Horticulture, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Eirini Sarrou
- Institute of Plant Breeding and Genetic Resources, Hellenic Agricultural Organization - DEMETER, Thessaloniki, Greece
| | - Stefan Martens
- Research and Innovation Centre, Fondazione Edmund Mach, San Michele all’Adige, Italy
| | - Danijela Mišić
- Department of Plant Physiology, Institute for Biological Research “Siniša Stanković”-National Institute of Republic of Serbia, University of Belgrade, Belgrade, Serbia
| | - Angelos Kanellis
- Group of Biotechnology of Pharmaceutical Plants, Laboratory of Pharmacognosy, Department of Pharmaceutical Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
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19
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Li M, Sun L, Gu H, Cheng D, Guo X, Chen R, Wu Z, Jiang J, Fan X, Chen J. Genome-wide characterization and analysis of bHLH transcription factors related to anthocyanin biosynthesis in spine grapes (Vitis davidii). Sci Rep 2021; 11:6863. [PMID: 33767241 PMCID: PMC7994560 DOI: 10.1038/s41598-021-85754-w] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2020] [Accepted: 03/04/2021] [Indexed: 01/31/2023] Open
Abstract
As one of the largest transcription factor family, basic helix-loop-helix (bHLH) transcription factor family plays an important role in plant metabolism, physiology and growth. Berry color is one of the important factors that determine grape quality. However, the bHLH transcription factor family's function in anthocyanin synthesis of grape berry has not been studied systematically. We identified 115 bHLH transcription factors in grape genome and phylogenetic analysis indicated that bHLH family could be classified into 25 subfamilies. First, we screened six candidate genes by bioinformatics analysis and expression analysis. We found one of the candidate genes VdbHLH037 belonged to III (f) subfamily and interacted with genes related to anthocyanin synthesis through phylogenetic analysis and interaction network prediction. Therefore, we speculated that VdbHLH037 participated in the anthocyanin synthesis process. To confirm this, we transiently expressed VdbHLH037 in grape and Arabidopsis transformation. Compared with the control, transgenic materials can accumulate more anthocyanins. These results provide a good base to study the function of the VdbHLH family in anthocyanin synthesis of grape berry.
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Affiliation(s)
- Ming Li
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Lei Sun
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Hong Gu
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Dawei Cheng
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - XiZhi Guo
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Rui Chen
- grid.464465.10000 0001 0103 2256Biotechnology Research Institute, Tianjin Academy of Agricultural Sciences, Tianjin, 300192 China
| | - Zhiyong Wu
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Jianfu Jiang
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Xiucai Fan
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
| | - Jinyong Chen
- grid.410727.70000 0001 0526 1937Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, 450009 China
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20
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Jasmonates and Plant Salt Stress: Molecular Players, Physiological Effects, and Improving Tolerance by Using Genome-Associated Tools. Int J Mol Sci 2021; 22:ijms22063082. [PMID: 33802953 PMCID: PMC8002660 DOI: 10.3390/ijms22063082] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2021] [Revised: 03/11/2021] [Accepted: 03/15/2021] [Indexed: 12/18/2022] Open
Abstract
Soil salinity is one of the most limiting stresses for crop productivity and quality worldwide. In this sense, jasmonates (JAs) have emerged as phytohormones that play essential roles in mediating plant response to abiotic stresses, including salt stress. Here, we reviewed the mechanisms underlying the activation and response of the JA-biosynthesis and JA-signaling pathways under saline conditions in Arabidopsis and several crops. In this sense, molecular components of JA-signaling such as MYC2 transcription factor and JASMONATE ZIM-DOMAIN (JAZ) repressors are key players for the JA-associated response. Moreover, we review the antagonist and synergistic effects between JA and other hormones such as abscisic acid (ABA). From an applied point of view, several reports have shown that exogenous JA applications increase the antioxidant response in plants to alleviate salt stress. Finally, we discuss the latest advances in genomic techniques for the improvement of crop tolerance to salt stress with a focus on jasmonates.
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21
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Zhao F, Song P, Zhang X, Li G, Hu P, Aslam A, Zhao X, Zhou H. Identification of candidate genes influencing anthocyanin biosynthesis during the development and ripening of red and white strawberry fruits via comparative transcriptome analysis. PeerJ 2021; 9:e10739. [PMID: 33604178 PMCID: PMC7863778 DOI: 10.7717/peerj.10739] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2020] [Accepted: 12/18/2020] [Indexed: 11/20/2022] Open
Abstract
Strawberries are one of the most economically important berry fruits worldwide and exhibit colours ranging from white to dark red, providing a rich genetic resource for strawberry quality improvement. In the present study, we conducted transcriptome analyses of three strawberry cultivars, namely, 'Benihoppe', 'Xiaobai', and 'Snow White', and compared their gene expression profiles. Among the high-quality sequences, 5,049 and 53,200 differentially expressed genes (DEGs) were obtained when comparing the diploid and octoploid strawberry genomes and analysed to identify anthocyanin-related candidate genes. Sixty-five DEGs in the diploid genome (transcriptome data compared to the diploid strawberry genome) and 317 DEGs in the octoploid genome (transcriptome data compared to the octoploid strawberry genome) were identified among the three cultivars. Among these DEGs, 19 and 70 anthocyanin pathway genes, six and 42 sugar pathway genes, 23 and 101 hormone pathway genes, and 17 and 104 transcription factors in the diploid and octoploid genomes, respectively, correlated positively or negatively with the anthocyanin accumulation observed among the three cultivars. Real-time qPCR analysis of nine candidate genes showed a good correlation with the transcriptome data. For example, the expression of PAL was higher in 'Benihoppe' and 'Xiaobai' than in 'Snow White', consistent with the RNA-seq data. Thus, the RNA-seq data and candidate DEGs identified in the present study provide a sound basis for further studies of strawberry fruit colour formation.
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Affiliation(s)
- Fengli Zhao
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Pan Song
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Xiangfen Zhang
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Gang Li
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Panpan Hu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Ali Aslam
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Xia Zhao
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
| | - Houcheng Zhou
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, China
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22
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Yin X, Wang T, Zhang M, Zhang Y, Irfan M, Chen L, Zhang L. Role of core structural genes for flavonoid biosynthesis and transcriptional factors in flower color of plants. BIOTECHNOL BIOTEC EQ 2021. [DOI: 10.1080/13102818.2021.1960605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Affiliation(s)
- Xiaojuan Yin
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
- Key Laboratory of Protected Horticulture (Ministry of Education), College of Horticulture, Shenyang Agricultural University, Liaoning, PR China
| | - Tiantian Wang
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
| | - Min Zhang
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
| | - Yibing Zhang
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
| | - Muhammad Irfan
- Department of Biotechnology, Faculty of Science, University of Sargodha, Sargodha, Pakistan
| | - Lijing Chen
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
- Key Laboratory of Protected Horticulture (Ministry of Education), College of Horticulture, Shenyang Agricultural University, Liaoning, PR China
| | - Li Zhang
- Key Laboratory of Agriculture Biotechnology, College of Biosciences and Biotechnology, Shenyang Agricultural University, Liaoning, PR China
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23
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Badu-Apraku B, Adewale S, Paterne AA, Gedil M, Toyinbo J, Asiedu R. Identification of QTLs for grain yield and other traits in tropical maize under Striga infestation. PLoS One 2020; 15:e0239205. [PMID: 32925954 PMCID: PMC7489516 DOI: 10.1371/journal.pone.0239205] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Accepted: 09/02/2020] [Indexed: 12/02/2022] Open
Abstract
Striga is an important biotic factor limiting maize production in sub-Saharan Africa and can cause yield losses as high as 100%. Marker-assisted selection (MAS) approaches hold a great potential for improving Striga resistance but requires identification and use of markers associated with Striga resistance for adequate genetic gains from selection. However, there is no report on the discovery of quantitative trait loci (QTL) for resistance to Striga in maize under artificial field infestation. In the present study, 198 BC1S1 families obtained from a cross involving TZEEI 29 (Striga resistant inbred line) and TZEEI 23 (Striga susceptible inbred line) plus the two parental lines were screened under artificial Striga-infested conditions at two Striga-endemic locations in Nigeria in 2018, to identify QTL associated with Striga resistance indicator traits, including grain yield, ears per plant, Striga damage and number of emerged Striga plants. Genetic map was constructed using 1,386 DArTseq markers distributed across the 10 maize chromosomes, covering 2076 cM of the total genome with a mean spacing of 0.11 cM between the markers. Using composite interval mapping (CIM), fourteen QTL were identified for key Striga resistance/tolerance indicator traits: 3 QTL for grain yield, 4 for ears per plant and 7 for Striga damage at 10 weeks after planting (WAP), across environments. Putative candidate genes which encode major transcription factor families WRKY, bHLH, AP2-EREBPs, MYB, and bZIP involved in plant defense signaling were detected for Striga resistance/tolerance indicator traits. The QTL detected in the present study would be useful for rapid transfer of Striga resistance/tolerance genes into Striga susceptible but high yielding maize genotypes using MAS approaches after validation. Further studies on validation of the QTL in different genetic backgrounds and in different environments would help verify their reproducibility and effective use in breeding for Striga resistance/tolerance.
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Affiliation(s)
- Baffour Badu-Apraku
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
- * E-mail:
| | - Samuel Adewale
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | | | - Melaku Gedil
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Johnson Toyinbo
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
| | - Robert Asiedu
- International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria
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24
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Gao Q, Luo H, Li Y, Liu Z, Kang C. Genetic modulation of RAP alters fruit coloration in both wild and cultivated strawberry. PLANT BIOTECHNOLOGY JOURNAL 2020; 18:1550-1561. [PMID: 31845477 PMCID: PMC7292541 DOI: 10.1111/pbi.13317] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2019] [Revised: 12/01/2019] [Accepted: 12/10/2019] [Indexed: 05/09/2023]
Abstract
Fruit colour affects consumer preference and is an important trait for breeding in strawberry. Previously, we isolated the Reduced Anthocyanins in Petioles (RAP) gene encoding a glutathione S-transferase (GST) that binds anthocyanins to facilitate their transport from cytosol to vacuole in the diploid strawberry Fragaria vesca. The parent of rap was the F. vesca variety 'Yellow Wonder' that develops white fruit due to a natural mutation in the FveMYB10 gene. Here, we investigated the application potential of RAP in modulating fruit colours by overexpression of RAP in F. vesca and knockout of RAP in the cultivated strawberry Fragaria × ananassa. Unexpectedly, the RAP overexpression in Yellow Wonder background caused formation of red fruit. In addition, the red coloration occurs precociously at floral stage 10 and continues in the receptacle during early fruit development. Transcriptome analysis revealed that the anthocyanin biosynthesis genes were not up-regulated in RAP-ox; rap myb10 flowers at anthesis and largely inhibited at the turning stage in fruit, suggesting a coloration mechanism independent of FveMYB10. Moreover, we used CRISPR/Cas9 to knockout RAP in cultivated strawberry which is octoploid. Six copies of RAP were simultaneously knocked out in the T0 generation leading to the green stem and white-fruited phenotype. Several T1 progeny have segregated away the CRISPR/Cas9 transgene but maintain the green stem trait. Our results indicate that enhancing the anthocyanin transport could redirect the metabolic flux from proanthocyanidin to anthocyanin production at early developmental stages of fruit and that RAP is one promising candidate gene in fruit colour breeding of strawberry.
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Affiliation(s)
- Qi Gao
- Key Laboratory of Horticultural Plant Biology (Ministry of Education)College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhanChina
| | - Huifeng Luo
- Institute of HorticultureHangzhou Academy of Agricultural SciencesHangzhouChina
| | - Yongping Li
- Key Laboratory of Horticultural Plant Biology (Ministry of Education)College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhanChina
| | - Zhongchi Liu
- Department of Cell Biology and Molecular GeneticsUniversity of MarylandCollege ParkMDUSA
| | - Chunying Kang
- Key Laboratory of Horticultural Plant Biology (Ministry of Education)College of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhanChina
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25
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Kazemitabar SK, Faraji S, Najafi-Zarrini H. Identification and in silico evaluation of bHLH genes in the Sesamum indicum genome: Growth regulation and stress dealing specially through the metal ions homeostasis and flavonoid biosynthesis. GENE REPORTS 2020. [DOI: 10.1016/j.genrep.2020.100639] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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26
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Li Y, Xu P, Chen G, Wu J, Liu Z, Lian H. FvbHLH9 Functions as a Positive Regulator of Anthocyanin Biosynthesis by Forming a HY5-bHLH9 Transcription Complex in Strawberry Fruits. PLANT & CELL PHYSIOLOGY 2020; 61:826-837. [PMID: 32016380 DOI: 10.1093/pcp/pcaa010] [Citation(s) in RCA: 54] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 01/24/2020] [Indexed: 05/18/2023]
Abstract
Anthocyanin accumulation is transcriptionally regulated by the MYB-bHLH-WD40 complex. Light is indispensable for anthocyanin accumulation, and light-inducible MYB and HY5 were considered to promote anthocyanin accumulation in many fruits. Whether and how light-inducible bHLH transcription factor and HY5 regulate anthocyanin synthesis in strawberry is unknown. In this study, we identified a bHLH transcription factor, FvbHLH9, which was induced by light as well as FvHY5, and found that, similar to FvHY5, the transient overexpression and interference FvbHLH9 in strawberry fruits can promote and decrease anthocyanin accumulation, respectively, indicating FvbHLH9 functions as a positive regulator of anthocyanin biosynthesis. Furthermore, we confirmed that both FvHY5 and FvbHLH9 specifically bind to the promoter region of some key enzyme genes, including FvDFR, and the expression of FvDFR was activated through the heterodimer formation between FvHY5 and FvbHLH9. Finally, we confirmed that FvbHLH9-promoted anthocyanin accumulation is dependent on HY5-bHLH heterodimerisation in Arabidopsis. Our findings provide insights into a mechanism involving the synergistic regulation of light-dependent coloration and anthocyanin biosynthesis via a HY5-bHLH heterodimer formed by the interaction of FvHY5 and FvbHLH9 in strawberry fruits.
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Affiliation(s)
- Yang Li
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Pengbo Xu
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Guanqun Chen
- School of Design, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Jun Wu
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Zhongchi Liu
- Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD 20742, USA
| | - Hongli Lian
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
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27
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Sánchez-Pérez R, Pavan S, Mazzeo R, Moldovan C, Aiese Cigliano R, Del Cueto J, Ricciardi F, Lotti C, Ricciardi L, Dicenta F, López-Marqués RL, Møller BL. Mutation of a bHLH transcription factor allowed almond domestication. Science 2020; 364:1095-1098. [PMID: 31197015 DOI: 10.1126/science.aav8197] [Citation(s) in RCA: 78] [Impact Index Per Article: 19.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Accepted: 05/23/2019] [Indexed: 11/02/2022]
Abstract
Wild almond species accumulate the bitter and toxic cyanogenic diglucoside amygdalin. Almond domestication was enabled by the selection of genotypes harboring sweet kernels. We report the completion of the almond reference genome. Map-based cloning using an F1 population segregating for kernel taste led to the identification of a 46-kilobase gene cluster encoding five basic helix-loop-helix transcription factors, bHLH1 to bHLH5. Functional characterization demonstrated that bHLH2 controls transcription of the P450 monooxygenase-encoding genes PdCYP79D16 and PdCYP71AN24, which are involved in the amygdalin biosynthetic pathway. A nonsynonymous point mutation (Leu to Phe) in the dimerization domain of bHLH2 prevents transcription of the two cytochrome P450 genes, resulting in the sweet kernel trait.
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Affiliation(s)
- R Sánchez-Pérez
- Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, 30100 Espinardo, Spain. .,Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark
| | - S Pavan
- Department of Soil, Plant and Food Science, University of Bari "Aldo Moro," 70126 Bari, Italy. .,Institute of Biomedical Technologies, National Research Council (CNR), 70126 Bari, Italy
| | - R Mazzeo
- Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,Department of Soil, Plant and Food Science, University of Bari "Aldo Moro," 70126 Bari, Italy
| | - C Moldovan
- Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark
| | - R Aiese Cigliano
- Sequentia Biotech SL, Campus de la UAB, 08193 Bellaterra, Barcelona, Spain
| | - J Del Cueto
- Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, 30100 Espinardo, Spain.,Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,Arboriculture Research Group, Agroscope, Conthey, Switzerland
| | - F Ricciardi
- Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,Department of the Sciences of Agriculture, Food and Environment, University of Foggia, 71100 Foggia, Italy
| | - C Lotti
- Department of the Sciences of Agriculture, Food and Environment, University of Foggia, 71100 Foggia, Italy
| | - L Ricciardi
- Department of Soil, Plant and Food Science, University of Bari "Aldo Moro," 70126 Bari, Italy
| | - F Dicenta
- Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, 30100 Espinardo, Spain
| | - R L López-Marqués
- Transport Biology Section, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark
| | - B Lindberg Møller
- Plant Biochemistry Laboratory, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark.,VILLUM Research Center for Plant Plasticity, Department of Plant and Environmental Sciences, University of Copenhagen, DK-1871 Frederiksberg C, Denmark
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28
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Miao L, Gao Y, Zhao K, Kong L, Yu S, Li R, Liu K, Yu X. Comparative analysis of basic helix-loop-helix gene family among Brassica oleracea, Brassica rapa, and Brassica napus. BMC Genomics 2020; 21:178. [PMID: 32093614 PMCID: PMC7041300 DOI: 10.1186/s12864-020-6572-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Accepted: 02/10/2020] [Indexed: 01/24/2024] Open
Abstract
Background The basic helix–loop–helix (bHLH) is the second largest gene family in the plant, some members play important roles in pistil development and response to drought, waterlogging, cold stress and salt stress. The bHLH gene family has been identified in many species, except for Brassica oleracea and B. napus thus far. This study aims to identify the bHLH family members in B. oleracea, B. rapa and B. napus, and elucidate the expression, duplication, phylogeny and evolution characters of them. Result A total of 268 bHLH genes in B. oleracea, 440 genes in B. napus, and 251 genes in B. rapa, including 21 new bHLH members, have been identified. Subsequently, the analyses of the phylogenetic trees, conserved motifs and gene structures showed that the members in the same subfamily were highly conserved. Most Ka/Ks values of homologous gene were < 1, which indicated that these genes suffered from strong purifying selection for retention. The retention rates of BrabHLH and BolbHLH genes were 51.6 and 55.1%, respectively. The comparative expression patterns between B. rapa and B. napus showed that they had similar expression patterns in the root and contrasting patterns in the stems, leaves, and reproductive tissues. In addition, there were 41 and 30 differential expression bHLH genes under the treatments of ABA and JA, respectively, and the number of down regulation genes was significantly more than up regulation genes. Conclusion In the present study, we identified and performed the comparative genomics analysis of bHLH gene family among B. oleracea, B. rapa and B. napus, and also investigated their diversity. The expression patterns between B. rapa and B. napus shows that they have the similar expression pattern in the root and opposite patterns in the stems, leaves, and reproduction tissues. Further analysis demonstrated that some bHLH gene members may play crucial roles under the abiotic and biotic stress conditions. This is the first to report on the bHLH gene family analysis in B. oleracea and B. napus, which can offer useful information on the functional analysis of the bHLH gene in plants.
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Affiliation(s)
- Liming Miao
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Yingying Gao
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Kun Zhao
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Lijun Kong
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Shubo Yu
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Rongrong Li
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Kaiwen Liu
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China.,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China
| | - Xiaolin Yu
- Laboratory of Cell and Molecular Biology, Institute of Vegetable Science, Zhejiang University, 866 Yuhangtang Road, Zhejiang, 310058, Hangzhou, China. .,Key Laboratory of Horticultural Plant Growth, Development, and Quality Improvement, Ministry of Agriculture, Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang, 310058, Hangzhou, China.
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Medina-Puche L, Martínez-Rivas FJ, Molina-Hidalgo FJ, Mercado JA, Moyano E, Rodríguez-Franco A, Caballero JL, Muñoz-Blanco J, Blanco-Portales R. An atypical HLH transcriptional regulator plays a novel and important role in strawberry ripened receptacle. BMC PLANT BIOLOGY 2019; 19:586. [PMID: 31881835 PMCID: PMC6933692 DOI: 10.1186/s12870-019-2092-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Accepted: 10/21/2019] [Indexed: 05/13/2023]
Abstract
BACKGROUND In soft fruits, the differential expression of many genes during development and ripening is responsible for changing their organoleptic properties. In strawberry fruit, although some genes involved in the metabolic regulation of the ripening process have been functionally characterized, some of the most studied genes correspond to transcription factors. High throughput transcriptomics analyses performed in strawberry red receptacle (Fragaria x ananassa) allowed us to identify a ripening-related gene that codes an atypical HLH (FaPRE1) with high sequence homology with the PACLOBUTRAZOL RESISTANCE (PRE) genes. PRE genes are atypical bHLH proteins characterized by the lack of a DNA-binding domain and whose function has been linked to the regulation of cell elongation processes. RESULTS FaPRE1 sequence analysis indicates that this gene belongs to the subfamily of atypical bHLHs that also includes ILI-1 from rice, SlPRE2 from tomato and AtPRE1 from Arabidopsis, which are involved in transcriptional regulatory processes as repressors, through the blockage by heterodimerization of bHLH transcription factors. FaPRE1 presented a transcriptional model characteristic of a ripening-related gene with receptacle-specific expression, being repressed by auxins and activated by abscisic acid (ABA). However, its expression was not affected by gibberellic acid (GA3). On the other hand, the transitory silencing of FaPRE1 transcription by agroinfiltration in receptacle produced the down-regulation of a group of genes related to the ripening process while inducing the transcription of genes involved in receptacle growth and development. CONCLUSIONS In summary, this work presents for the first time experimental data that support an important novel function for the atypical HLH FaPRE1 during the strawberry fruit ripening. We hypothesize that FaPRE1 modulates antagonistically the transcription of genes related to both receptacle growth and ripening. Thus, FaPRE1 would repress the expression of receptacle growth promoting genes in the ripened receptacle, while it would activate the expression of those genes related to the receptacle ripening process.
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Affiliation(s)
- Laura Medina-Puche
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
- Present Address: Shanghai Center for Plant Stress Biology (PSC), Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Félix J. Martínez-Rivas
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Francisco J. Molina-Hidalgo
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
- Present Address: VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - José A. Mercado
- Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Departamento de Biología Vegetal, Universidad de Málaga, Málaga, Spain
| | - Enriqueta Moyano
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Antonio Rodríguez-Franco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - José L. Caballero
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Juan Muñoz-Blanco
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
| | - Rosario Blanco-Portales
- Departamento de Bioquímica y Biología Molecular, Edificio Severo Ochoa C-6, Campus Universitario de Rabanales y Campus de Excelencia Internacional Agroalimentario CEIA3, Universidad de Córdoba, Córdoba, Spain
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Genome-Wide Analysis of Basic Helix-Loop-Helix Superfamily Members Reveals Organization and Chilling-Responsive Patterns in Cabbage (Brassica oleracea var. capitata L.). Genes (Basel) 2019; 10:genes10110914. [PMID: 31717469 PMCID: PMC6895899 DOI: 10.3390/genes10110914] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2019] [Accepted: 11/05/2019] [Indexed: 11/16/2022] Open
Abstract
Basic helix–loop–helix (bHLH) transcription factor (TF) family is commonly found in eukaryotes, which is one of the largest families of regulator proteins. It plays an important role in plant growth and development, as well as various biotic and abiotic stresses. However, a comprehensive analysis of the bHLH family has not been reported in Brassica oleracea. In this study, we systematically describe the BobHLHs in the phylogenetic relationships, expression patterns in different organs/tissues, and in response to chilling stress, and gene and protein characteristics. A total of 234 BobHLH genes were identified in the B. oleracea genome and were further clustered into twenty-three subfamilies based on the phylogenetic analyses. A large number of BobHLH genes were unevenly located on nine chromosomes of B. oleracea. Analysis of RNA-Seq expression profiles revealed that 21 BobHLH genes exhibited organ/tissue-specific expression. Additionally, the expression of six BobHLHs (BobHLH003, -048, -059, -093, -109, and -148) were significantly down-regulated in chilling-sensitive cabbage (CS-D9) and chilling-tolerant cabbage (CT-923). At 24 h chilling stress, BobHLH054 was significantly down-regulated and up-regulated in chilling-treated CS-D9 and CT-923. Conserved motif characterization and exon/intron structural patterns showed that BobHLH genes had similar structures in the same subfamily. This study provides a comprehensive analysis of BobHLH genes and reveals several candidate genes involved in chilling tolerance of B. oleracea, which may be helpful to clarify the roles of bHLH family members and understand the regulatory mechanisms of BobHLH genes in response to the chilling stress of cabbage.
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Vergauwen D, De Smet I. The Strawberry Tales: Size Matters. TRENDS IN PLANT SCIENCE 2019; 24:1-3. [PMID: 30409686 DOI: 10.1016/j.tplants.2018.10.007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Revised: 10/12/2018] [Accepted: 10/15/2018] [Indexed: 05/03/2023]
Abstract
The history of the strawberry is one of ambitious kings and cunning spies, overseas adventures, and religious symbolism. Here, we will tell these stories, illustrated by relevant paintings and drawings, to give insight into the domestication of the strawberry. Furthermore, we will briefly discuss the complex strawberry genomes and aroma.
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Affiliation(s)
- David Vergauwen
- Amarant vzw, Zebrastraat 30-001, B-9000 Ghent, Belgium; Artesis Plantijn University College Antwerp, Royal Conservatoire Antwerp, 2000 Antwerp, Belgium
| | - Ive De Smet
- Ghent University, Department of Plant Biotechnology and Bioinformatics, 9052 Ghent, Belgium; VIB Center for Plant Systems Biology, 9052 Ghent, Belgium.
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Molecular Regulation of Catalpol and Acteoside Accumulation in Radial Striation and non-Radial Striation of Rehmannia glutinosa Tuberous Root. Int J Mol Sci 2018; 19:ijms19123751. [PMID: 30486279 PMCID: PMC6321003 DOI: 10.3390/ijms19123751] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Revised: 11/08/2018] [Accepted: 11/22/2018] [Indexed: 12/19/2022] Open
Abstract
Rehmannia glutinosa L., a perennial plant of Scrophulariaceae, is one of the most commonly used herbs in traditional Chinese medicine (TCM) that have been widely cultivated in China. However, to date, the biosynthetic pathway of its two quality-control components, catalpol and acteoside, are only partially elucidated and the mechanism for their tissue-specific accumulation remains unknown. To facilitate the basic understanding of the key genes and transcriptional regulators involved in the biosynthesis of catalpol and acteoside, transcriptome sequencing of radial striation (RS) and non-radial striation (nRS) from four R. glutinosa cultivars was performed. A total of 715,158,202 (~107.27 Gb) high quality reads obtained using paired-end Illumina sequencing were de novo assembled into 150,405 transcripts. Functional annotation with multiple public databases identified 155 and 223 unigenes involved in catalpol and acteoside biosynthesis, together with 325 UGTs, and important transcription factor (TF) families. Comparative analysis of the transcriptomes identified 362 unigenes, found to be differentially expressed in all RS vs. nRS comparisons, with 143 upregulated unigenes, including those encoding enzymes of the catalpol and acteoside biosynthetic pathway, such as geranyl diphosphate synthase (RgGPPS), geraniol 8-hydroxylase (RgG10H), and phenylalanine ammonia-lyase (RgPAL). Other differentially expressed unigenes predicted to be related to catalpol and acteoside biosynthesis fall into UDP-dependent glycosyltransferases (UGTs), as well as transcription factors. In addition, 16 differentially expressed genes were selectively confirmed by real-time PCR. In conclusion, a large unigene dataset of R. glutinosa generated in the current study will serve as a resource for the identification of potential candidate genes for investigation of the tuberous root development and biosynthesis of active components.
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Biochemical and Functional Characterization of Anthocyanidin Reductase (ANR) from Mangifera indica L. Molecules 2018; 23:molecules23112876. [PMID: 30400564 PMCID: PMC6278290 DOI: 10.3390/molecules23112876] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2018] [Revised: 10/27/2018] [Accepted: 10/30/2018] [Indexed: 11/20/2022] Open
Abstract
Mango (Mangifera indica L.) is abundant in proanthocyanidins (PAs) that are important for human health and plant response to abiotic stresses. However, the molecular mechanisms involved in PA biosynthesis still need to be elucidated. Anthocyanidin reductase (ANR) catalyzes a key step in PA biosynthesis. In this study, three ANR cDNAs (MiANR1-1,1-2,1-3) were isolated from mango, and expressed in Escherichia coli. In vitro enzyme assay showed MiANR proteins convert cyanidin to their corresponding flavan-3-ols, such as (−)-catechin and (−)-epicatechin. Despite high amino acid similarity, the recombinant ANR proteins exhibited differences in enzyme kinetics and cosubstrate preference. MiANR1-2 and MiANR1-3 have the same optimum pH of 4.0 in citrate buffer, while the optimum pH for MiANR1-1 is pH 3.0 in phosphate buffer. MiANR1-1 does not use either NADPH or NADH as co-substrate while MiANR1-2/1-3 use only NADPH as co-substrate. MiANR1-2 has the highest Km and Vmax for cyanidin, followed by MiANR1-3 and MiANR1-1. The overexpression of MiANRs in ban mutant reconstructed the biosynthetic pathway of PAs in the seed coat. These data demonstrate MiANRs can form the ANR pathway, leading to the formation of two types of isomeric flavan-3-ols and PAs in mango.
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