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Title: Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum

Abstract

Sugarcane is the most important sugar and biofuel crop. MADS-box genes encode transcription factors that are involved in developmental control and signal transduction in plants. Systematic analyses of MADS-box genes have been reported in many plant species, but its identification and characterization were not possible until a reference genome of autotetraploid wild type sugarcane specie, Saccharum spontaneum is available recently. We identified 182 MADS-box sequences in the S. spontaneumgenome, which were annotated into 63 genes, including 6 (9.5%) genes with four alleles, 21 (33.3%) with three, 29 (46%) with two, 7 (11.1%) with one allele. Paralogs (tandem duplication and disperse duplicated) were also identified and characterized. These MADS-box genes were divided into two groups; Type-I (21 Mα, 4 Mβ, 4 Mγ) and Type-II (32 MIKCc, 2 MIKC*) through phylogenetic analysis with orthologs in Arabidopsis and sorghum. Structural diversity and distribution of motifs were studied in detail. Chromosomal localizations revealed that S. spontaneum MADS-box genes were randomly distributed across eight homologous chromosome groups. The expression profiles of these MADS-box genes were analyzed in leaves, roots, stem sections and after hormones treatment. Important alleles based on promoter analysis and expression variations were dissected. qRT-PCR analysis was performed to verify the expression patternmore » of pivotal S. spontaneum MADS-box genes and suggested that flower timing genes (SOC1 and SVP) may regulate vegetative development.« less

Authors:
 [1];  [2];  [3];  [3];  [4];  [5]
+ Show Author Affiliations
  1. Fujian Agriculture and Forestry Univ., Fujian (China). Fujian Provincial Key Lab. of Haixia Applied Plant Systems Biology. National Sugarcane Engineering Technology Research Center. FAFU and UIUC‑SIB Joint Center for Genomics and Biotechnology. College of Agriculture
  2. Univ. of Illinois at Urbana-Champaign, IL (United States). Dept. of Plant Biology
  3. Fujian Agriculture and Forestry Univ., Fujian (China). Fujian Provincial Key Lab. of Haixia Applied Plant Systems Biology. National Sugarcane Engineering Technology Research Center. FAFU and UIUC‑SIB Joint Center for Genomics and Biotechnology. College of Agriculture
  4. Fujian Agriculture and Forestry Univ., Fujian (China). College of Resources and Environment
  5. Fujian Agriculture and Forestry Univ., Fujian (China). Fujian Provincial Key Lab. of Haixia Applied Plant Systems Biology. National Sugarcane Engineering Technology Research Center. FAFU and UIUC‑SIB Joint Center for Genomics and Biotechnology. College of Agriculture; Univ. of Illinois at Urbana-Champaign, IL (United States). Dept. of Plant Biology
Publication Date:
Research Org.:
Univ. of Illinois at Urbana-Champaign, IL (United States)
Sponsoring Org.:
USDOE Office of Science (SC); International Consortium for Sugarcane Biotechnology project
OSTI Identifier:
1851418
Grant/Contract Number:  
SC0010686; EBI-BP2012OO2J17
Resource Type:
Accepted Manuscript
Journal Name:
Scientific Reports
Additional Journal Information:
Journal Volume: 10; Journal Issue: 1; Journal ID: ISSN 2045-2322
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Science & Technology - Other Topics

Citation Formats

Fatima, Mahpara, Zhang, Xiaodan, Lin, Jishan, Zhou, Ping, Zhou, Dong, and Ming, Ray. Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum. United States: N. p., 2020. Web. doi:10.1038/s41598-020-77375-6.
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Fatima, Mahpara, Zhang, Xiaodan, Lin, Jishan, Zhou, Ping, Zhou, Dong, & Ming, Ray. Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum. United States. https://doi.org/10.1038/s41598-020-77375-6
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Fatima, Mahpara, Zhang, Xiaodan, Lin, Jishan, Zhou, Ping, Zhou, Dong, and Ming, Ray. Wed . "Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum". United States. https://doi.org/10.1038/s41598-020-77375-6. https://www.osti.gov/servlets/purl/1851418.
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@article{osti_1851418,
title = {Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum},
author = {Fatima, Mahpara and Zhang, Xiaodan and Lin, Jishan and Zhou, Ping and Zhou, Dong and Ming, Ray},
abstractNote = {Sugarcane is the most important sugar and biofuel crop. MADS-box genes encode transcription factors that are involved in developmental control and signal transduction in plants. Systematic analyses of MADS-box genes have been reported in many plant species, but its identification and characterization were not possible until a reference genome of autotetraploid wild type sugarcane specie, Saccharum spontaneum is available recently. We identified 182 MADS-box sequences in the S. spontaneumgenome, which were annotated into 63 genes, including 6 (9.5%) genes with four alleles, 21 (33.3%) with three, 29 (46%) with two, 7 (11.1%) with one allele. Paralogs (tandem duplication and disperse duplicated) were also identified and characterized. These MADS-box genes were divided into two groups; Type-I (21 Mα, 4 Mβ, 4 Mγ) and Type-II (32 MIKCc, 2 MIKC*) through phylogenetic analysis with orthologs in Arabidopsis and sorghum. Structural diversity and distribution of motifs were studied in detail. Chromosomal localizations revealed that S. spontaneum MADS-box genes were randomly distributed across eight homologous chromosome groups. The expression profiles of these MADS-box genes were analyzed in leaves, roots, stem sections and after hormones treatment. Important alleles based on promoter analysis and expression variations were dissected. qRT-PCR analysis was performed to verify the expression pattern of pivotal S. spontaneum MADS-box genes and suggested that flower timing genes (SOC1 and SVP) may regulate vegetative development.},
doi = {10.1038/s41598-020-77375-6},
journal = {Scientific Reports},
number = 1,
volume = 10,
place = {United States},
year = {Wed Nov 25 00:00:00 EST 2020},
month = {Wed Nov 25 00:00:00 EST 2020}
}
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