Abstract:
【Objective】 Identification and analysis of
TCP family genes in upland cotton can lay a foundation for studying the biological functions of
TCP genes.
【Methods】 Based on the newly assembled upland cotton TM-1 reference genome in 2019, the
TCP family HMM model file was obtained from Pfam website, the upland cotton
TCP gene was identified using Hmmer website, and the upland cotton
TCP genome protein sequence was obtained from Cotton FGD website. MapInspect software was used for chromosome location, MEGA 7.0 was used for multiple sequence alignment cluster analysis, MEME website was used for motif prediction, TBtools software was used for gene structure identification and tissue-specific expression analysis of upland cotton.
【Results】 Sixty-three
TCP genes of upland cotton were identified from the whole genome level, including 39 subclasses of Class I and 24 subclasses of Class II. The Class II subfamilies included 17 CIN subclasses and 7 CYC/TB1 subclasses. The 63 genes were distributed on 22 chromosomes of upland cotton, including 33 genes in group A and 30 genes in Group D. All
TCP proteins contained
TCP domains. The gene structure analysis results showed that the structures and lengths of exon and introns were similar in the same subfamily. 12 of the
TCP family genes were preferentially expressed in fibrous tissue, 32 in flower organs, and 16 in roots, stems and leaves.
【Conclusion】 In this study,
TCP genes related to flowering regulation and fiber development in upland cotton are identified and obtained by bioinformatics method.