Genomics & Informatics

  • 제20권2호
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  • Pages.19.1-19.15
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  • 2022
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  • 1598-866X(pISSN)
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  • 2234-0742(eISSN)
한국유전체학회 (Korea Genome Organization)
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In silico genome wide identification and expression analysis of the WUSCHEL-related homeobox gene family in Medicago sativa

  • Yang, Tianhui (Institute of Animal Science, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Gao, Ting (Institute of Animal Science, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Wang, Chuang (Institute of Animal Science, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Wang, Xiaochun (Institute of Animal Science, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Chen, Caijin (Branch Institute of Guyuan, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Tian, Mei (Institute of Horticultural Science, Ningxia Academy of Agriculture and Forestry Sciences) ;
  • Yang, Weidi (Institute of Animal Science, Ningxia Academy of Agriculture and Forestry Sciences)
  • 투고 : 2022.02.21
  • 심사 : 2022.03.28
  • 발행 : 2022.06.30
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초록

Alfalfa (Medicago sativa) is an important food and feed crop which rich in mineral sources. The WUSCHEL-related homeobox (WOX) gene family plays important roles in plant development and identification of putative gene families, their structure, and potential functions is a primary step for not only understanding the genetic mechanisms behind various biological process but also for genetic improvement. A variety of computational tools, including MAFFT, HMMER, hidden Markov models, Pfam, SMART, MEGA, ProtTest, BLASTn, and BRAD, among others, were used. We identified 34 MsWOX genes based on a systematic analysis of the alfalfa plant genome spread in eight chromosomes. This is an expansion of the gene family which we attribute to observed chromosomal duplications. Sequence alignment analysis revealed 61 conserved proteins containing a homeodomain. Phylogenetic study sung reveal five evolutionary clades with 15 motif distributions. Gene structure analysis reveals various exon, intron, and untranslated structures which are consistent in genes from similar clades. Functional analysis prediction of promoter regions reveals various transcription binding sites containing key growth, development, and stress-responsive transcription factor families such as MYB, ERF, AP2, and NAC which are spread across the genes. Most of the genes are predicted to be in the nucleus. Also, there are duplication events in some genes which explain the expansion of the family. The present research provides a clue on the potential roles of MsWOX family genes that will be useful for further understanding their functional roles in alfalfa plants.

키워드

과제정보

This study was funded by Major breeding project in Ningxia Hui Autonomous Region (2019NYYZ03) and Natural Science Foundation of Ningxia Hui Autonomous Region (2021AAC03286).

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