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Isolation and characterization of hypoxia inducible gene connective tissue growth factor (CTGF) in Labeo rohita

  • Iliyas Rashid
  • Vishwamitra Singh Baisvar
  • Mahender Singh
  • Prachi Srivastava
  • Ravindra KumarEmail author
  • Basdeo Kushwaha
  • Ajey Kumar Pathak
Original Article
  • 45 Downloads

Abstract

The connective tissue growth factor gene plays important role in several biological processes and also responsive to hypoxia stress in fishes. The freshwater fish, Labeo rohita, highly cultured in Indian subcontinent for food, is reported as hypoxia sensitive but annotation and sequences of nuclear genes were not available for this species so far in the public domain, except some transcripts. In this study, an attempt was made for isolation and annotation of the CTGF gene in L. rohita using information of zebrafish from the same family. The CTGF gene sequence was obtained by aligning assembled genome of L. rohita, (NCBI BioProject ID: PRJNA437789), with the CTGF protein of zebrafish. Eight overlapping sets of forward and reverse primers from aligned region were designed for amplification of around 600 bp long successive overlapping fragments of CTGF gene in L. rohita. Assembly and annotation of overlapping fragments confirmed a complete 2421 bp long CTGF gene sequence with a full coding region that comprised of five exons between 308 and 1921 positions. This annotated CTGF gene sequence was submitted to GenBank (Acc. No. KY940466). Characterization of CTGF will be an initiative in identification of hypoxia response genes in L. rohita which may further help in understanding the mechanism of hypoxia tolerability in this species.

Keywords

Database HIF HRE Hypoxia Promoter Transcription 

Abbreviations

CTGF

Connective tissue growth factor

HAS

Hypoxia ancillary sequence

HIF

Hypoxia inducible factors

HRE

Hypoxia response element

TSS

Transcription start site

Notes

Acknowledgements

Authors are thankful to the Director, ICAR-NBFGR, Lucknow, for providing necessary facilities to carry out this work. Authors are also thankful to the CABin Scheme of ICAR and CABin Division of ICAR-IASRI, New Delhi, for financial assistance and guidance. First author is thankful to Dr. Satarudra Prakash Singh and Dr. Vineet Awasthi, Amity University Uttar Pradesh, Lucknow, for their continued suggestions.

Compliance with ethical standards

Conflict of interest

The authors declare no conflict of interest.

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Copyright information

© Springer Nature B.V. 2019

Authors and Affiliations

  • Iliyas Rashid
    • 1
    • 2
  • Vishwamitra Singh Baisvar
    • 1
  • Mahender Singh
    • 1
  • Prachi Srivastava
    • 2
  • Ravindra Kumar
    • 1
    Email author
  • Basdeo Kushwaha
    • 1
  • Ajey Kumar Pathak
    • 1
  1. 1.Molecular Biology and Biotechnology DivisionICAR-National Bureau of Fish Genetic ResourcesLucknowIndia
  2. 2.AMITY Institute of BiotechnologyAMITY University Uttar PradeshLucknowIndia

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