Evidence map›Paper›PMID 42298228›Full record

ArticleFunctional & integrative genomics2026

Genome-wide identification and expression analysis of IDD gene family in Gossypium hirsutum L.

Shuo Zhang, Huixin Jiao, Dongyun Zuo, Qiaolian Wang, Limin Lv, Youping Zhang, Yi Yang, Guoli Song, Hailiang Cheng

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Article in Functional & integrative genomics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

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0cells of the map it votes in
1citing papers in PubMed
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1 · What the graph read from it

What it found

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3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

9 authors.

Shuo Zhang *Zhengzhou Research Base, State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, School of Agriculture and Biomanufacturing, Zhengzhou University, Zhengzhou, Henan, 450001, China.
Huixin Jiao *Zhengzhou Research Base, State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, School of Agriculture and Biomanufacturing, Zhengzhou University, Zhengzhou, Henan, 450001, China.
Dongyun ZuoState Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China.
Qiaolian WangState Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China.
Limin LvState Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China.
Youping ZhangState Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, 455000, China.
Yi YangZhengzhou Research Base, State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, School of Agriculture and Biomanufacturing, Zhengzhou University, Zhengzhou, Henan, 450001, China.
Guoli SongZhengzhou Research Base, State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, School of Agriculture and Biomanufacturing, Zhengzhou University, Zhengzhou, Henan, 450001, China. sglzms@163.com.
Hailiang ChengZhengzhou Research Base, State Key Laboratory of Cotton Bio-breeding and Integrated Utilization, School of Agriculture and Biomanufacturing, Zhengzhou University, Zhengzhou, Henan, 450001, China. pser2010@163.com.

Funding

Agriculture Research System of China Grant No. CARS15-06Nanfan Special Project Grant No.YBXM2441, YBXM2546 and YBXM2447National Key Research and Development Program of China 2024YFD1200305Natural Science Foundation of Henan Province Grant No. 232300421041State Key Laboratory of CottonBio-breeding and Integrated Utilization/ Institute of Cotton Research of CAAS Grant No: CB2025C08 and CB2025C18
6 · The paper itself

Abstract

The INDETERMINATE DOMAIN (IDD) proteins are a plant-specific class of zinc finger transcription factors crucial for development and stress adaptation. In this study, genome-wide identification and expression analysis of IDD gene family was conducted. 66 IDD proteins were identified in Gossypium hirsutum. Protein sequence alignment revealed that the N-terminal regions of GhIDD members were highly conserved, but the C-terminal MSATALLQKAA and TR/LDFLG motifs were missing in some members. Gene duplication analysis showed that whole-genome duplication (WGD) or segmental duplication was the main driving force for IDD gene amplification in cotton. Furthermore, the IDD gene family in cotton is under purifying selection during evolution. Expression analysis showed that GhIDD members were preferentially expressed in stems, leaves and pistils. AtIDD3 has been reported to interact with many GRAS family proteins. Therefore, its cotton homolog, GhIDD38, was selected for further analysis. Subcellular localization analysis confirmed that GhIDD38 is localized in the nucleus, supporting its role as a transcription factor. Gene expression analysis showed that the GhIDD38 gene was expressed at higher levels in leaves than in stems of the glandless stem line T582. The expression patterns of GhIDD38 and GoSPGF under MeJA and GA treatments were similar. Notably, GoSPGF encodes a GRAS protein involved in the glandless stem phenotype. Meanwhile, yeast two-hybrid analysis revealed that GhIDD38 interacts with GoSPGF. Therefore, we speculate that GhIDD38 and GoSPGF form a complex to regulate gland development via hormonal signals. These findings provide a basis for further understanding the biological functions of GhIDD members in cotton.

Indexed as

GossypiumPlant ProteinsTranscription FactorsAmino Acid SequenceGene DuplicationGene Expression Regulation, PlantGenome, PlantMultigene FamilyPhylogenyZinc FingersPlant ProteinsTranscription FactorsCottonExpression analysisGenome-wide analysisIntegrative genomicsPhylogenetic analysisProtein interactions

Identifiers

PMID42298228

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.