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系统分析和表达谱的 TCP 基因家族在苦荞 (Fagopyrum tataricum (L.) Gaertn.) 揭示了潜在的功能 FtTCP15 和 FtTCP18 在应对非生物胁迫。

Systematic analysis and expression profiles of TCP gene family in Tartary buckwheat (Fagopyrum tataricum (L.) Gaertn.) revealed the potential function of FtTCP15 and FtTCP18 in response to abiotic stress.

机构信息

Agricultural College, Guizhou University, Guiyang, Guizhou, 550025, People's Republic of China.

Big Data Application and Economics College, Guizhou Finance and Economics University, Guiyang, Guizhou, 550025, People's Republic of China.

出版信息

BMC Genomics. 2022 Jun 2;23(1):415. doi: 10.1186/s12864-022-08618-1.

DOI:10.1186/s12864-022-08618-1
PMID:35655134
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9164426/
Abstract

BACKGROUND

As transcription factors, the TCP genes are considered to be promising targets for crop enhancement for their responses to abiotic stresses. However, information on the systematic characterization and functional expression profiles under abiotic stress of TCPs in Tartary buckwheat (Fagopyrum tataricum (L.) Gaertn.) is limited.

RESULTS

In this study, we identified 26 FtTCPs and named them according to their position on the chromosomes. Phylogenetic tree, gene structure, duplication events, and cis-acting elements were further studied and syntenic analysis was conducted to explore the bioinformatic traits of the FtTCP gene family. Subsequently, 12 FtTCP genes were selected for expression analysis under cold, dark, heat, salt, UV, and waterlogging (WL) treatments by qRT-PCR. The spatio-temporal specificity, correlation analysis of gene expression levels and interaction network prediction revealed the potential function of FtTCP15 and FtTCP18 in response to abiotic stresses. Moreover, subcellular localization confirmed that FtTCP15 and FtTCP18 localized in the nucleus function as transcription factors.

CONCLUSIONS

In this research, 26 TCP genes were identified in Tartary buckwheat, and their structures and functions have been systematically explored. Our results reveal that the FtTCP15 and FtTCP18 have special cis-elements in response to abiotic stress and conserved nature in evolution, indicating they could be promising candidates for further functional verification under multiple abiotic stresses.

摘要

背景

作为转录因子，TCP 基因因其对非生物胁迫的响应而被认为是作物改良的有前途的靶标。然而，关于荞麦属（苦荞麦）TCP 基因在非生物胁迫下的系统特征和功能表达谱的信息有限。

结果

本研究在苦荞麦中鉴定了 26 个 FtTCP 基因，并根据其在染色体上的位置进行了命名。进一步研究了系统发育树、基因结构、复制事件和顺式作用元件，并进行了共线性分析，以探讨 FtTCP 基因家族的生物信息学特征。随后，通过 qRT-PCR 对 12 个 FtTCP 基因在冷、暗、热、盐、UV 和淹水（WL）处理下的表达进行了分析。时空特异性、基因表达水平的相关性分析和互作网络预测揭示了 FtTCP15 和 FtTCP18 对非生物胁迫响应的潜在功能。此外，亚细胞定位证实 FtTCP15 和 FtTCP18 定位于细胞核内，作为转录因子发挥作用。

结论

本研究在苦荞麦中鉴定了 26 个 TCP 基因，并对其结构和功能进行了系统探索。我们的结果表明，FtTCP15 和 FtTCP18 对非生物胁迫具有特殊的顺式元件和进化上的保守性，表明它们可能是进一步在多种非生物胁迫下进行功能验证的有前途的候选基因。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/80fe68c4597a/12864_2022_8618_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/0674edfa4779/12864_2022_8618_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/87e53d4afbe0/12864_2022_8618_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/9ea00cab82de/12864_2022_8618_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/58350b6eaeca/12864_2022_8618_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/d8339af09280/12864_2022_8618_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/1513d2321afc/12864_2022_8618_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/9d9d2831c142/12864_2022_8618_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/7be7aae33b2d/12864_2022_8618_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/80fe68c4597a/12864_2022_8618_Fig9_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/0674edfa4779/12864_2022_8618_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/87e53d4afbe0/12864_2022_8618_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/9ea00cab82de/12864_2022_8618_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/58350b6eaeca/12864_2022_8618_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/d8339af09280/12864_2022_8618_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/1513d2321afc/12864_2022_8618_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/9d9d2831c142/12864_2022_8618_Fig7_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/7be7aae33b2d/12864_2022_8618_Fig8_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/18b0/9164426/80fe68c4597a/12864_2022_8618_Fig9_HTML.jpg

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