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Characterization of oocyte-expressed GDF9 gene in buffalo and mapping of its TSS and putative regulatory elements

Published online by Cambridge University Press:  10 January 2012

B. Roy ,
S. Rajput ,
S. Raghav ,
P. Kumar ,
A. Verma ,
A. Jain ,
T. Jain ,
D. Singh ,
S. De  and
S.L. Goswami
...Show all authors
B. Roy
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
S. Rajput
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
S. Raghav
Affiliation:
Amity Institute of Biotechnology, Amity University, UP, India.
P. Kumar
Affiliation:
Division of Hematology and Transfusion Medicine, Lund University, Sweden.
A. Verma
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
A. Jain
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
T. Jain
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
D. Singh
Affiliation:
Molecular Endocrinology Laboratory, National Dairy Research Institute, Karnal, India.
S. De
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
S.L. Goswami
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal, India.
T.K. Datta*
Affiliation:
Animal Genomics Laboratory, National Dairy Research Institute, Karnal 132001, Haryana, India.
*
All correspondences to: T.K. Datta. Animal Genomics Laboratory, National Dairy Research Institute, Karnal 132001, Haryana, India. Tel: +91 184 2259506. Fax: +91 184 2250042. e-mail: [email protected]
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Summary

In spite of emerging evidence about the vital role of GDF9 in determination of oocyte competence, there is insufficient information about its regulation of oocyte-specific expression, particularly in livestock animals. Because of the distinct prominence of buffalo as a dairy animal, the present study was undertaken to isolate and characterize GDF9 cDNA using orthologous primers based on the bovine GDF9 sequence. GDF9 transcripts were found to be expressed in oocytes irrespective of their follicular origin, and shared a single transcription start site (TSS) at –57 base pairs (bp) upstream of ATG. Assignment of the TSS is consistent with the presence of a TATA element at –23 of the TSS mapped in this study. Localization of a buffalo-specific minimal promoter within 320 bp upstream of ATG was consolidated by identification of an E-box element at –113bp. Presence of putative transcription factor binding sites and other cis regulatory elements were analyzed at ~5 kb upstream of TSS. Various germ cell-specific cis-acting regulatory elements (BNCF, BRNF, NR2F, SORY, Foxh1, OCT1, LHXF etc.) have been identified in the 5′ flanking region of the buffalo GDF9 gene, including NOBOX DNA binding elements and consensuses E-boxes (CANNTG). Presence of two conserved E-boxes found on buffalo sequence at –520 and –718 positions deserves attention in view of its sequence deviation from other species. Two NOBOX binding elements (NBE) were detected at the –3471 and –203 positions. The fall of the NBE within the putative minimal promoter territory of buffalo GDF9 and its unique non-core binding sequence could have a possible role in the control of the core promoter activity.

Keywords

BuffaloGDF9OocytesTranscription factorsTSS
Type
Research Article
Information
Zygote , Volume 21 , Issue 2 , May 2013 , pp. 115 - 124
Copyright
Copyright © Cambridge University Press 2012

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