» Articles » PMID: 31428126

A Gene Expression Atlas of the Domestic Water Buffalo ()

Abstract

The domestic water buffalo () makes a major contribution to the global agricultural economy in the form of milk, meat, hides, and draught power. The global water buffalo population is predominantly found in Asia, and per head of population more people depend upon the buffalo than on any other livestock species. Despite its agricultural importance, there are comparatively fewer genomic and transcriptomic resources available for buffalo than for other livestock species. We have generated a large-scale gene expression atlas covering multiple tissue and cell types from all major organ systems collected from three breeds of riverine water buffalo (Mediterranean, Pandharpuri and Bhadawari) and used the network analysis tool Graphia Professional to identify clusters of genes with similar expression profiles. Alongside similar data, we and others have generated for ruminants as part of the Functional Annotation of Animal Genomes Consortium; this comprehensive transcriptome supports functional annotation and comparative analysis of the water buffalo genome.

Citing Articles

BuffExDb: web-based tissue-specific gene expression resource for breeding and conservation programmes in Bubalus bubalis.

Kumari N, Kumar S, Roy A, Saini P, Jaiswal S, Iquebal M Database (Oxford). 2025; 2025.

PMID: 39854213 PMC: 11758923. DOI: 10.1093/database/baae128.


Continent-wide genomic analysis of the African buffalo (Syncerus caffer).

Talenti A, Wilkinson T, Cook E, Hemmink J, Paxton E, Mutinda M Commun Biol. 2024; 7(1):792.

PMID: 38951693 PMC: 11217449. DOI: 10.1038/s42003-024-06481-2.


Validation of Candidate Host Cell Entry Factors for Bovine Herpes Virus Type-1 Based on a Genome-Wide CRISPR Knockout Screen.

Tan W, Rong E, Dry I, Lillico S, Law A, Digard P Viruses. 2024; 16(2).

PMID: 38400072 PMC: 10893506. DOI: 10.3390/v16020297.


AgAnimalGenomes: browsers for viewing and manually annotating farm animal genomes.

Triant D, Walsh A, Hartley G, Petry B, Stegemiller M, Nelson B Mamm Genome. 2023; 34(3):418-436.

PMID: 37460664 PMC: 10382368. DOI: 10.1007/s00335-023-10008-1.


A Multi-Tissue Gene Expression Atlas of Water Buffalo () Reveals Transcriptome Conservation between Buffalo and Cattle.

Si J, Dai D, Li K, Fang L, Zhang Y Genes (Basel). 2023; 14(4).

PMID: 37107649 PMC: 10137413. DOI: 10.3390/genes14040890.


References
1.
Liu C, Xu Z, Gupta D, Dziarski R . Peptidoglycan recognition proteins: a novel family of four human innate immunity pattern recognition molecules. J Biol Chem. 2001; 276(37):34686-94. DOI: 10.1074/jbc.M105566200. View

2.
Muller F, Huber K, Pfannkuche H, Aschenbach J, Breves G, Gabel G . Transport of ketone bodies and lactate in the sheep ruminal epithelium by monocarboxylate transporter 1. Am J Physiol Gastrointest Liver Physiol. 2002; 283(5):G1139-46. DOI: 10.1152/ajpgi.00268.2001. View

3.
Mathur P, Murray B, Crowell T, Gardner H, Allaire N, Hsu Y . Murine peptidoglycan recognition proteins PglyrpIalpha and PglyrpIbeta are encoded in the epidermal differentiation complex and are expressed in epidermal and hematopoietic tissues. Genomics. 2004; 83(6):1151-63. DOI: 10.1016/j.ygeno.2004.01.003. View

4.
Pruitt K, Tatusova T, Maglott D . NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2004; 33(Database issue):D501-4. PMC: 539979. DOI: 10.1093/nar/gki025. View

5.
Carninci P, Kasukawa T, Katayama S, Gough J, Frith M, Maeda N . The transcriptional landscape of the mammalian genome. Science. 2005; 309(5740):1559-63. DOI: 10.1126/science.1112014. View