Genome-Wide Identification and Classification of Soybean C2H2 Zinc Finger Proteins and Their Expression Analysis in Legume-Rhizobium Symbiosis

Frontiers in Microbiology
Songli YuanXin-An Zhou

Abstract

Root nodule symbiosis (RNS) is one of the most productive and economical systems for nitrogen fixation, and previous studies have shown that several nodule-specific C2H2-zinc finger proteins (ZFPs) play important roles in symbiosis establishment and nodule function. However, C2H2-ZFPs are the most widespread ZFPs in eukaryotes, and a great variation of structure and function exist among the family members. It remains largely unclear whether or not special types of C2H2-ZF genes participate in symbiosis, especially in soybean. In the present study, we performed a genome-wide survey of soybean C2H2-ZF genes, and 321 soybean C2H2-ZF genes were identified and classified into 11 clearly distinguishable subsets (Gm-t1-SF, Gm-t2-SF, Gm-1i-Q-SF, Gm-1i-M-SF, Gm-1i-Z-SF, Gm-1i-D-SF, Gm-2i-Q-SF, Gm-2i-M-SF, Gm-2i-Mix-SF, Gm-3i-SF, and Gm-4i-SF) based on the arrangements, numbers, and types of C2H2-ZF domains. Phylogenetic and gene ontology analyses were carried out to assess the conserved sequence and GO function among these subsets, and the results showed that the classification of soybean C2H2-ZFPs was reasonable. The expression profile of soybean C2H2-ZFPs in multiple tissues showed that nearly half of soybean C2H2-ZFPs within differen...Continue Reading

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Citations

Sep 12, 2018·International Journal of Molecular Sciences·Tianqi Lyu, Jiashu Cao
Oct 2, 2019·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Esmaeil MiraeizMatthew E Hudson
Sep 2, 2020·BMC Plant Biology·Zhicheng JiaoLiangfa Ge
Oct 6, 2018·Biometals : an International Journal on the Role of Metal Ions in Biology, Biochemistry, and Medicine·Sahar FarajiSeyyed Kamal Kazemitabar
Oct 12, 2021·Frontiers in Plant Science·Guoliang HanBaoshan Wang

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Methods Mentioned

BETA
RNA-seq
histone acetylation
interaction network prediction

Software Mentioned

Cytoscape
MEGA6
Circos
GO Term Enrichment Tool
pheatmap
MEGA
R
ClustalW

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