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Biologia

pp 1–14 | Cite as

Genome wide characterization, evolution and expression analysis of FBA gene family under salt stress in Gossypium species

  • Muhammad Shehzad
  • Allah Ditta
  • Xiaoyan Cai
  • Zhongli Zhou
  • Xingxing Wang
  • Yanchao Xu
  • Yuqing Hou
  • Muhammad Yasir
  • Majid Khan
  • Kunbo WangEmail author
  • Fang LiuEmail author
Original Article

Abstract

Abiotic stress is an important bottleneck in crop yield around the world. The main purpose of this study is to describe the function and expression patterns of Fructose-1, 6-bisphosphate Aldolase (FBA) gene family in Gossypium species under salt stress. FBA genes are implicated in plant growth and development as well as salt stress tolerance. In this study, 19 FBA genes were found in G. hirsutum, while 9 genes each in case of G. arboreum and G. raimondii. Based on protein domains and phylogenetic analysis, FBA genes were categorized into two classes I and II. Gene structure analysis and motifs division of FBA genes in three Gossypium species showed that numerous genes of FBA have unequal distribution of introns, suggesting new functions in the gene family. Combined syntenic blocks of FBA genes revealed 31duplicated genes among the three Gossypium species. Three kinds of duplications (segmental, tandem and dispersed) were observed with most of the FBA genes duplicated in segmental pattern and remaineds conserved, which could be a possible basis of expansion of FBA genes in cotton (Gossypium). Gene ontology results showed that FBA genes were involved in a couple of mechanisms such as vacuole compartmentalization, glycolysis process and zinc ion binding. The expression analysis depicted that most of class I genes were upregulated in salt tolerant species, G. darwinii as compared to salt susceptible species G. hirsutum. These finding shows comprehensive information on structure and promising function of FBA gene family in Gossypium plant under salt stress.

Keywords

G. darwinii FBA gene family G. hirsutum Gene expression Salt stress 

Abbreviations

MF

Molecular function

CIRCOS

Circular Genome Data Visualization

GSDS

Gene Structure Display Server

FBA

Fructose-1, 6-bisphosphate aldolase

CpFBA

Chloroplastic FBA

cFBA

Cytosolic FBA

GO

Gene ontology

NaCl

Sodium chloride

HMM

Hidden Markov Model

MYA

Million years ago

G

Gossypium

Notes

Acknowledgments

We express gratitude to all of our team and lab fellows who have helped us in our research experiment

Author contributions

M.S., K.W. and F.L. designed this research experiment. M.S. organized experiment, data collection and analysis of results. M.S. and A.D. created and revised a manuscript. A.D., F.L., X.C., X.W., Y.X., Y.H., M.Y., Z.Z. and M.K. reviewed the manuscript; finally, all authors examined and accepted this manuscript for submission.

Funding

The research work of this project was supported by National key research and development plan (2016YFD0100306, 2017YFD0101601) and National Natural Science Foundation of China (31530053, 31671745).

Compliance with ethical standards

Conflict of interest

All authors declare that they have no competing interests.

Supplementary material

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Table S1 (DOC 50 kb)
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Table S2 (DOCX 14 kb)
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Table S3 (DOCX 15 kb)
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Table S4 (DOCX 15 kb)
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Table S5 (DOCX 17 kb)
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Table S6 (DOC 58 kb)
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Table S7 (DOCX 16 kb)
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Fig S1 QRT-PCR results of selected FBA genes under salt stress (PNG 17 kb)

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Copyright information

© Institute of Molecular Biology, Slovak Academy of Sciences 2019

Authors and Affiliations

  • Muhammad Shehzad
    • 1
  • Allah Ditta
    • 1
    • 2
  • Xiaoyan Cai
    • 1
  • Zhongli Zhou
    • 1
  • Xingxing Wang
    • 1
  • Yanchao Xu
    • 1
  • Yuqing Hou
    • 1
  • Muhammad Yasir
    • 1
  • Majid Khan
    • 1
  • Kunbo Wang
    • 1
    Email author
  • Fang Liu
    • 1
    Email author
  1. 1.State Key Laboratory of Cotton Biology, Institute of Cotton ResearchChinese Academy of Agricultural SciencesAnyang, HenanChina
  2. 2.Plant Breeding and Genetics Division, Cotton GroupNuclear Institute for Agricultural and Biology (NIAB)PunjabPakistan

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