51
|
Ma T, Dong F, Luan D, Hu H, Zhao J. Gene expression and localization of arabinogalactan proteins during the development of anther, ovule, and embryo in rice. PROTOPLASMA 2019; 256:909-922. [PMID: 30675653 DOI: 10.1007/s00709-019-01349-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2018] [Accepted: 01/09/2019] [Indexed: 06/09/2023]
Abstract
Arabinogalactan proteins (AGPs) are hyperglycosylated members of the hydroxyproline-rich glycoprotein (HRGP) superfamily and are widely distributed throughout the plant kingdom. In Oryza sativa (rice), the gene expression and biological function of AGPs only have received minimal research attention. Here, we used qRT-PCR to detect the expression patterns of OsAGP genes in various organs, and found that six genes were preferentially expressed in panicles, three genes were specifically expressed in anthers, and one gene in the stigma. Furthermore, using four specific monoclonal antibodies (JIM8, JIM13, LM2, MAC207), we observed the distribution of AGPs in rice anthers, ovules, and embryos. In anthers, the strong fluorescence signals of AGPs were present in tapetum cells, pollen mother cells, and mature pollens, suggesting that AGPs might be related to the development of anther and pollen. In ovules, signals of AGPs were specifically distributed in the three micropylar megaspores of the tetrad, and with intense signals in the egg cell and synergid cells in the mature embryo sac. This suggests that AGPs may be involved in megaspore determination and double fertilization. In embryos, the immunological signals of AGPs appeared in peripheral and inner cells at the early stage, and in the scutellum, plumule, and radicle at the late stage, indicating that AGPs may be associated with organ differentiation and maturation of embryos. In this study, we revealed that AGPs were widely distributed in rice anthers, ovules, and embryos, which lays a foundation for the functional investigation of AGPs in various processes of sexual reproduction.
Collapse
Affiliation(s)
- Tengfei Ma
- State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China
| | - Fang Dong
- State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China
| | - Die Luan
- State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China
| | - Hengjin Hu
- State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China
| | - Jie Zhao
- State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China.
| |
Collapse
|
52
|
Jacobowitz JR, Doyle WC, Weng JK. PRX9 and PRX40 Are Extensin Peroxidases Essential for Maintaining Tapetum and Microspore Cell Wall Integrity during Arabidopsis Anther Development. THE PLANT CELL 2019; 31:848-861. [PMID: 30886127 PMCID: PMC6501601 DOI: 10.1105/tpc.18.00907] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Revised: 02/06/2019] [Accepted: 03/13/2019] [Indexed: 05/22/2023]
Abstract
Pollen and microspore development are essential steps in the life cycle of all land plants that generate male gametes. Within flowering plants, pollen development occurs inside of the anther. Here, we report the identification of two class III peroxidase-encoding genes, PEROXIDASE9 (PRX9) and PRX40, that are genetically redundant and essential for proper anther and pollen development in Arabidopsis (Arabidopsis thaliana). Arabidopsis double mutants devoid of functional PRX9 and PRX40 are male sterile. The mutant anthers display swollen, hypertrophic tapetal cells and pollen grains, suggesting disrupted cell wall integrity. These phenotypes lead to nearly 100%-penetrant pollen degeneration upon anther maturation. Using immunochemical and biochemical approaches, we show that PRX9 and PRX40 likely cross-link extensins to contribute to tapetal cell wall integrity during anther development. This work suggests that PRX9 and PRX40 encode Arabidopsis extensin peroxidases and highlights the importance of extensin cross-linking during pollen development.
Collapse
Affiliation(s)
- Joseph R Jacobowitz
- Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142
- Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, 02139
| | - William C Doyle
- Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142
| | - Jing-Ke Weng
- Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142
- Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, 02139
| |
Collapse
|
53
|
Wan X, Wu S, Li Z, Dong Z, An X, Ma B, Tian Y, Li J. Maize Genic Male-Sterility Genes and Their Applications in Hybrid Breeding: Progress and Perspectives. MOLECULAR PLANT 2019; 12:321-342. [PMID: 30690174 DOI: 10.1016/j.molp.2019.01.014] [Citation(s) in RCA: 79] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Revised: 01/10/2019] [Accepted: 01/10/2019] [Indexed: 05/06/2023]
Abstract
As one of the most important crops, maize not only has been a source of the food, feed, and industrial feedstock for biofuel and bioproducts, but also became a model plant system for addressing fundamental questions in genetics. Male sterility is a very useful trait for hybrid vigor utilization and hybrid seed production. The identification and characterization of genic male-sterility (GMS) genes in maize and other plants have deepened our understanding of the molecular mechanisms controlling anther and pollen development, and enabled the development and efficient use of many biotechnology-based male-sterility (BMS) systems for crop hybrid breeding. In this review, we summarize main advances on the identification and characterization of GMS genes in maize, and construct a putative regulatory network controlling maize anther and pollen development by comparative genomic analysis of GMS genes in maize, Arabidopsis, and rice. Furthermore, we discuss and appraise the features of more than a dozen BMS systems for propagating male-sterile lines and producing hybrid seeds in maize and other plants. Finally, we provide our perspectives on the studies of GMS genes and the development of novel BMS systems in maize and other plants. The continuous exploration of GMS genes and BMS systems will enhance our understanding of molecular regulatory networks controlling male fertility and greatly facilitate hybrid vigor utilization in breeding and field production of maize and other crops.
Collapse
Affiliation(s)
- Xiangyuan Wan
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China.
| | - Suowei Wu
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Ziwen Li
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Zhenying Dong
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Xueli An
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Biao Ma
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Youhui Tian
- Biology and Agriculture Research Center, University of Science and Technology Beijing, Beijing 100024, China; Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| | - Jinping Li
- Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Beijing Solidwill Sci-Tech Co. Ltd., Beijing 100192, China
| |
Collapse
|
54
|
Leszczuk A, Szczuka E, Zdunek A. Arabinogalactan proteins: Distribution during the development of male and female gametophytes. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 135:9-18. [PMID: 30496891 DOI: 10.1016/j.plaphy.2018.11.023] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Revised: 11/19/2018] [Accepted: 11/19/2018] [Indexed: 05/07/2023]
Abstract
Arabinogalactan proteins (AGPs), i.e. a subfamily of hydroxyproline-rich proteins (HRGPs), are widely distributed in the plant kingdom. For many years, AGPs have been connected with the multiple phases of plant reproduction and developmental processes. Currently, extensive knowledge is available about their various functions, i.e. involvement in pollen grain formation, initiation of pollen grain germination, pollen tube guidance in the transmission tissue of pistil and ovule nucellus, and function as a signaling molecule during cell-cell communication. Although many studies have been performed, the mechanism of action, the heterogeneous molecule structure, and the connection with other extracellular matrix components have not been sufficiently explained. The aim of this work was to gather and describe the most important information on the distribution of AGPs in gametophyte development. The present review provides a summary of the first reports about AGPs and the most recent knowledge about their functions during male and female gametophyte formation.
Collapse
Affiliation(s)
- A Leszczuk
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290, Lublin, Poland.
| | - E Szczuka
- Department of Plant Anatomy and Cytology, Maria Curie-Skłodowska University, Akademicka 19, 20-033, Lublin, Poland.
| | - A Zdunek
- Institute of Agrophysics, Polish Academy of Sciences, Doświadczalna 4, 20-290, Lublin, Poland.
| |
Collapse
|
55
|
Tan C, Liu Z, Huang S, Feng H. Mapping of the male sterile mutant gene ftms in Brassica rapa L. ssp. pekinensis via BSR-Seq combined with whole-genome resequencing. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:355-370. [PMID: 30382313 DOI: 10.1007/s00122-018-3223-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Accepted: 10/25/2018] [Indexed: 05/19/2023]
Abstract
A male sterile mutant was created by 60Co γ-rays of microspores isolated from Chinese cabbage DH line 'FT'. A candidate gene for the male sterile trait was identified as Bra010198. Male sterility is used for hybrid seed production in Chinese cabbage. In this study, we derived a male sterile mutant (ftms) from Chinese cabbage DH line 'FT' by irradiating microspores with 60Co γ-rays and realized the rapid trait transformation from male fertility to sterility for creating valuable breeding materials. Genetic analysis indicated that the male sterile trait is controlled by a single recessive nuclear gene, ftms. Microspore development in mutant ftms was aborted at the tetrad stage and associated with severely retarded degeneration and vacuolation of tapetum. Using BSR-seq analysis, the candidate region for ftms was mapped on chromosome A05. A large F2 population was created, and the region was narrowed to approximately 1.7-Mb between markers Indel20 and Indel14 via linkage analysis. The recombination frequency was extremely suppressed because the region was located on the chromosome A05 centromere. Whole-genome resequencing of mutant ftms and wild-type 'FT' aligned only one nonsynonymous SNP to Bra010198; this gene is a homolog of Arabidopsis KNS4/UPEX1, which encodes a putative β-(1,3)-galactosyltransferase that controls pollen exine development. Comparative sequencing verified the SNP position on the fifth exon of Bra010198 in mutant ftms. Further genotyping revealed that the male sterile phenotype was fully co-segregated with this SNP. Quantitative real-time PCR indicated that Bra0101918 specifically expressed in stamen. The data presented herein suggested that Bra010198 is a strong candidate gene for ftms. Hence, we developed a male sterile line for potential application in breeding and expanded the knowledge about the molecular mechanism underlying male sterility in Chinese cabbage.
Collapse
Affiliation(s)
- Chong Tan
- Liaoning Key Laboratory of Genetics and Breeding for Cruciferous Vegetable Crops, College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
| | - Zhiyong Liu
- Liaoning Key Laboratory of Genetics and Breeding for Cruciferous Vegetable Crops, College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
| | - Shengnan Huang
- Liaoning Key Laboratory of Genetics and Breeding for Cruciferous Vegetable Crops, College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China
| | - Hui Feng
- Liaoning Key Laboratory of Genetics and Breeding for Cruciferous Vegetable Crops, College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China.
| |
Collapse
|
56
|
Routray P, Li T, Yamasaki A, Yoshinari A, Takano J, Choi WG, Sams CE, Roberts DM. Nodulin Intrinsic Protein 7;1 Is a Tapetal Boric Acid Channel Involved in Pollen Cell Wall Formation. PLANT PHYSIOLOGY 2018; 178:1269-1283. [PMID: 30266747 PMCID: PMC6236609 DOI: 10.1104/pp.18.00604] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Accepted: 09/03/2018] [Indexed: 05/23/2023]
Abstract
Boron is an essential plant micronutrient that plays a structural role in the rhamnogalacturonan II component of the pectic cell wall. To prevent boron deficiency under limiting conditions, its uptake, distribution, and homeostasis are mediated by boric acid transporters and channel proteins. Among the membrane channels that facilitate boric acid uptake are the type II nodulin intrinsic protein (NIP) subfamily of aquaporin-like proteins. Arabidopsis (Arabidopsis thaliana) possesses three NIP II genes (NIP5;1, NIP6;1, and NIP7;1) that show distinct tissue expression profiles (predominantly expressed in roots, stem nodes, and developing flowers, respectively). Orthologs of each are represented in all dicots. Here, we show that purified and reconstituted NIP7;1 is a boric acid facilitator. By using native promoter-reporter fusions, we show that NIP7;1 is expressed predominantly in anthers of young flowers in a narrow developmental window, floral stages 9 and 10, with protein accumulation solely within tapetum cells, where it is localized to the plasma membrane. Under limiting boric acid conditions, loss-of-function T-DNA mutants (nip7;1-1 and nip7;1-2) show reduced fertility, including shorter siliques and an increase in aborted seeds, compared with the wild type. Under these conditions, nip7;1 mutant pollen grains show morphological defects, increased aggregation, defective exine cell wall formation, reduced germination frequency, and decreased viability. During stages 9 and 10, the tapetum is essential for supplying materials to the pollen microspore cell wall. We propose that NIP7;1 serves as a gated boric acid channel in developing anthers that aids in the uptake of this critical micronutrient by tapetal cells.
Collapse
Affiliation(s)
- Pratyush Routray
- Department of Biochemistry and Cellular and Molecular Biology and Program in Genome Science and Technology, University of Tennessee, Knoxville, Tennessee 37996
| | - Tian Li
- Department of Biochemistry and Cellular and Molecular Biology and Program in Genome Science and Technology, University of Tennessee, Knoxville, Tennessee 37996
| | - Arisa Yamasaki
- Graduate School of Life and Environmental Sciences, Osaka Prefecture University, Sakai-shi, Osaka 599-8531, Japan
| | - Akira Yoshinari
- Graduate School of Life and Environmental Sciences, Osaka Prefecture University, Sakai-shi, Osaka 599-8531, Japan
| | - Junpei Takano
- Graduate School of Life and Environmental Sciences, Osaka Prefecture University, Sakai-shi, Osaka 599-8531, Japan
| | - Won Gyu Choi
- Department of Biochemistry and Cellular and Molecular Biology and Program in Genome Science and Technology, University of Tennessee, Knoxville, Tennessee 37996
| | - Carl E Sams
- Department of Plant Sciences, University of Tennessee Institute of Agriculture, Knoxville, Tennessee 37996
| | - Daniel M Roberts
- Department of Biochemistry and Cellular and Molecular Biology and Program in Genome Science and Technology, University of Tennessee, Knoxville, Tennessee 37996
| |
Collapse
|
57
|
Yang Y, Bao S, Zhou X, Liu J, Zhuang Y. The key genes and pathways related to male sterility of eggplant revealed by comparative transcriptome analysis. BMC PLANT BIOLOGY 2018; 18:209. [PMID: 30249187 PMCID: PMC6154905 DOI: 10.1186/s12870-018-1430-2] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2018] [Accepted: 09/17/2018] [Indexed: 05/18/2023]
Abstract
BACKGROUND Male sterility (MS) is an effective tool for hybrid production. Although MS has been widely reported in other plants, such as Arabidopsis and rice, the molecular mechanism of MS in eggplant is largely unknown. To understand the mechanism, the comparative transcriptomic file of MS line and its maintainer line was analyzed with the RNA-seq technology. RESULTS A total of 11,7695 unigenes were assembled and 19,652 differentially expressed genes (DEGs) were obtained. The results showed that 1,716 DEGs were shared in the three stages. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis indicated that these DEGs were mainly involved in oxidation-reduction, carbohydrate and amino acid metabolism. Moreover, transcriptional regulation was also the impact effector for MS and anther development. Weighted correlation network analysis (WGCNA) showed two modules might be responsible for MS, which was similar to hierarchical cluster analysis. CONCLUSIONS A number of genes and pathways associated with MS were found in this study. This study threw light on the molecular mechanism of MS and identified several key genes related to MS in eggplant.
Collapse
Affiliation(s)
- Yan Yang
- Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014 China
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing, 210014 China
| | - Shengyou Bao
- Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014 China
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing, 210014 China
| | - Xiaohui Zhou
- Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014 China
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing, 210014 China
| | - Jun Liu
- Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014 China
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing, 210014 China
| | - Yong Zhuang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095 China
- Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014 China
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Nanjing, 210014 China
| |
Collapse
|
58
|
Identification of Wheat Inflorescence Development-Related Genes Using a Comparative Transcriptomics Approach. Int J Genomics 2018; 2018:6897032. [PMID: 29581960 PMCID: PMC5822904 DOI: 10.1155/2018/6897032] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2017] [Revised: 11/26/2017] [Accepted: 12/03/2017] [Indexed: 12/14/2022] Open
Abstract
Inflorescence represents the highly specialized plant tissue producing the grains. Although key genes regulating flower initiation and development are conserved, the mechanism regulating fertility is still not well explained. To identify genes and gene network underlying inflorescence morphology and fertility of bread wheat, expressed sequence tags (ESTs) from different tissues were analyzed using a comparative transcriptomics approach. Based on statistical comparison of EST frequencies of individual genes in EST pools representing different tissues and verification with RT-PCR and RNA-seq data, 170 genes of 59 gene sets predominantly expressed in the inflorescence were obtained. Nearly one-third of the gene sets displayed differentiated expression profiles in terms of their subgenome orthologs. The identified genes, most of which were predominantly expressed in anthers, encode proteins involved in wheat floral identity determination, anther and pollen development, pollen-pistil interaction, and others. Particularly, 25 annotated gene sets are associated with pollen wall formation, of which 18 encode enzymes or proteins participating in lipid metabolic pathway, including fatty acid ω-hydroxylation, alkane and fatty alcohol biosynthesis, and glycerophospholipid metabolism. We showed that the comparative transcriptomics approach was effective in identifying genes for reproductive development and found that lipid metabolism was particularly active in wheat anthers.
Collapse
|
59
|
Su S, Higashiyama T. Arabinogalactan proteins and their sugar chains: functions in plant reproduction, research methods, and biosynthesis. PLANT REPRODUCTION 2018; 31:67-75. [PMID: 29470639 DOI: 10.1007/s00497-018-0329-2] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2018] [Accepted: 02/19/2018] [Indexed: 05/21/2023]
Abstract
The arabinogalactan protein (AGP) family is one of the most complex protein families and is ubiquitous in the plant kingdom. Moreover, it has been demonstrated to play various roles during plant reproduction. A typical AGP contains a hydroxyproline-rich core protein with high heterogeneity and varying numbers of polysaccharide side chains. However, the functions of the polysaccharide components (i.e. AG sugar chains) remain largely unknown due to the general difficulties associated with studying sugar chains in glycobiology. In recent years, methodological breakthroughs have resulted in substantial progress in AGP research. Here, we summarise the multiple roles of AGPs during plant gametophyte development and male-female communication, with a focus on recent advances. In addition, we discuss the analytical tools used in AGP research, and the biosynthesis and function of AG sugar chains. A comprehensive understanding of the AGP family will help clarify the mechanisms precisely controlling reproductive processes.
Collapse
Affiliation(s)
- Shihao Su
- Institute of Transformative Bio-Molecules (WPI-ITbM), Nagoya University, Furo-Cho, Chikusa-Ku, Nagoya, Aichi, 464-8601, Japan
| | - Tetsuya Higashiyama
- Institute of Transformative Bio-Molecules (WPI-ITbM), Nagoya University, Furo-Cho, Chikusa-Ku, Nagoya, Aichi, 464-8601, Japan.
- Graduate School of Science, Nagoya University, Furo-Cho, Chikusa-Ku, Nagoya, Aichi, 464-8602, Japan.
| |
Collapse
|
60
|
Moyo L, Ramesh SV, Kappagantu M, Mitter N, Sathuvalli V, Pappu HR. The effects of potato virus Y-derived virus small interfering RNAs of three biologically distinct strains on potato (Solanum tuberosum) transcriptome. Virol J 2017; 14:129. [PMID: 28716126 PMCID: PMC5513076 DOI: 10.1186/s12985-017-0803-8] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Accepted: 07/10/2017] [Indexed: 12/14/2022] Open
Abstract
BACKGROUND Potato virus Y (PVY) is one of the most economically important pathogen of potato that is present as biologically distinct strains. The virus-derived small interfering RNAs (vsiRNAs) from potato cv. Russet Burbank individually infected with PVY-N, PVY-NTN and PVY-O strains were recently characterized. Plant defense RNA-silencing mechanisms deployed against viruses produce vsiRNAs to degrade homologous viral transcripts. Based on sequence complementarity, the vsiRNAs can potentially degrade host RNA transcripts raising the prospect of vsiRNAs as pathogenicity determinants in virus-host interactions. This study investigated the global effects of PVY vsiRNAs on the host potato transcriptome. METHODS The strain-specific vsiRNAs of PVY, expressed in high copy number, were analyzed in silico for their proclivity to target potato coding and non-coding RNAs using psRobot and psRNATarget algorithms. Functional annotation of target coding transcripts was carried out to predict physiological effects of the vsiRNAs on the potato cv. Russet Burbank. The downregulation of selected target coding transcripts was further validated using qRT-PCR. RESULTS The vsiRNAs derived from biologically distinct strains of PVY displayed diversity in terms of absolute number, copy number and hotspots for siRNAs on their respective genomes. The vsiRNAs populations were derived with a high frequency from 6 K1, P1 and Hc-Pro for PVY-N, P1, Hc-Pro and P3 for PVY-NTN, and P1, 3' UTR and NIa for PVY-O genomic regions. The number of vsiRNAs that displayed interaction with potato coding transcripts and number of putative coding target transcripts were comparable between PVY-N and PVY-O, and were relatively higher for PVY-NTN. The most abundant target non-coding RNA transcripts for the strain specific PVY-derived vsiRNAs were found to be MIR821, 28S rRNA,18S rRNA, snoR71, tRNA-Met and U5. Functional annotation and qRT-PCR validation suggested that the vsiRNAs target genes involved in plant hormone signaling, genetic information processing, plant-pathogen interactions, plant defense and stress response processes in potato. CONCLUSIONS The findings suggested that the PVY-derived vsiRNAs could act as a pathogenicity determinant and as a counter-defense strategy to host RNA silencing in PVY-potato interactions. The broad range of host genes targeted by PVY vsiRNAs in infected potato suggests a diverse role for vsiRNAs that includes suppression of host stress responses and developmental processes. The interactome scenario is the first report on the interaction between one of the most important Potyvirus genome-derived siRNAs and the potato transcripts.
Collapse
MESH Headings
- Cluster Analysis
- DNA, Fungal/chemistry
- DNA, Fungal/genetics
- DNA, Plant/chemistry
- DNA, Plant/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Gene Expression Profiling
- Host-Pathogen Interactions
- Phylogeny
- Plant Diseases/virology
- Potyvirus/genetics
- Potyvirus/pathogenicity
- RNA, Plant/analysis
- RNA, Ribosomal, 18S/genetics
- RNA, Ribosomal, 28S/genetics
- RNA, Small Interfering/metabolism
- RNA, Viral/genetics
- RNA, Viral/metabolism
- Sequence Analysis, DNA
- Solanum tuberosum/virology
Collapse
Affiliation(s)
- Lindani Moyo
- Department of Plant Pathology, Washington State University, Pullman, WA 99164 USA
- Molecular Plant Sciences Graduate Program, Washington State University, Pullman, 99164 WA USA
| | - Shunmugiah V. Ramesh
- Department of Plant Pathology, Washington State University, Pullman, WA 99164 USA
- ICAR-Directorate of Soybean Research, Indian Council of Agricultural Research (ICAR), Indore, Madhya Pradesh 452 001 India
| | - Madhu Kappagantu
- Department of Plant Pathology, Washington State University, Pullman, WA 99164 USA
| | - Neena Mitter
- The University of Queensland, St. Lucia, QLD 4072 Australia
| | | | - Hanu R. Pappu
- Department of Plant Pathology, Washington State University, Pullman, WA 99164 USA
- Molecular Plant Sciences Graduate Program, Washington State University, Pullman, 99164 WA USA
| |
Collapse
|
61
|
Amasino RM, Cheung AY, Dresselhaus T, Kuhlemeier C. Focus on Flowering and Reproduction. PLANT PHYSIOLOGY 2017; 173:1-4. [PMID: 28049854 PMCID: PMC5210767 DOI: 10.1104/pp.16.01867] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Affiliation(s)
- Richard M Amasino
- Guest Editor
- Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706
| | - Alice Y Cheung
- Associate Editor
- Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003
| | - Thomas Dresselhaus
- Guest Editor
- Cell Biology and Plant Biochemistry, University of Regensburg, 93040 Regensburg, Germany
| | - Cris Kuhlemeier
- Monitoring Editor
- Institute of Plant Sciences, University of Bern, 3013 Bern, Switzerland
| |
Collapse
|