Y‐chromosomal variation confirms independent domestications of swamp and river buffalo

Yindee, Marnoch; Vlamings, Bart H.; Wajjwalku, Worawidh; Techakumphu, Mongkol; Lohachit, Chainarong; Sirivaidyapong, S.; Thitaram, Chatchote; Amarasinghe, A. A. A. W. K.; Alexander, P. A. B. D.; Colenbrander, B.; Lenstra, Johannes A.

doi:10.1111/j.1365-2052.2010.02020.x

Cited by 66 publications

(61 citation statements)

References 15 publications

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“…Water buffalo contributes significantly to the agricultural economy and dairy industry in the tropical and subtropical countries (Singh et al, 2000;Khan et al, 2011;Perera, 2011). It is the second largest source of milk supply in the world, and buffalo milk contains less water and more fat, lactose, protein, and minerals than cow milk (Vijh et al, 2008;Mahmood and Usman, 2010;Yindee et al, 2010). However, the AGPAT6 gene in water buffalo has not yet been isolated and characterized, and its tissue expression has not been clear to date.…”

Section: Agpat6mentioning

confidence: 99%

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Song¹,

Huo²,

Li³

et al. 2013

Genet. Mol. Res.

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ABSTRACT. Several 1-acylglycerol-3-phosphate-O-acyltransferases (AGPATs) can acylate lysophosphatidic acid to produce phosphatidic acid. Of the eight AGPAT isoforms, AGPAT6 is a crucial enzyme for glycerolipids and triacylglycerol biosynthesis in some mammalian tissues. We amplified and identified the complete coding sequence (CDS) of the water buffalo AGPAT6 gene by using the reverse transcription-polymerase chain reaction, based on the conversed sequence information of the cattle or expressed sequence tags of other Bovidae species. This novel gene was deposited in the NCBI database (accession No. JX518941). Sequence analysis revealed that the CDS of this AGPAT6 encodes a 456-amino acid enzyme (molecular mass = 52 kDa; pI = 9.34). Water buffalo AGPAT6 contains three hydrophobic transmembrane regions and a signal 37-amino acid peptide, localized in the cytoplasm. The deduced amino acid sequences share 99, 98, 98, 97, 98, 98, 97 and 95% identity with their homologous sequences from cattle, horse, human, mouse, orangutan, pig, rat, and chicken, respectively. The phylogenetic tree analysis based on the AGPAT6 CDS showed that water buffalo has a closer genetic relationship with cattle than with other species. Tissue expression profile analysis shows that this gene is highly expressed in the mammary gland, moderately expressed in the heart, muscle, liver, and brain; weakly expressed in the pituitary gland, spleen, and lung; and almost silently expressed in the small intestine, skin, kidney, and adipose tissues. Four predicted microRNA target sites are found in the water buffalo AGPAT6 CDS. These results will establish a foundation for further insights into this novel water buffalo gene.

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Section: Agpat6mentioning

confidence: 99%

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Song¹,

Huo²,

Li³

et al. 2013

Genet. Mol. Res.

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“…Mitochondrial DNA (mtDNA), Y-chromosomal and nuclear microsatellite data showed a deep genetic divergence of swamp and river buffalo 2, 5–7, 9–16 , which indicate two independent domestications 5, 17 . Domestication of river buffalo most likely took place in the Indian subcontinent 15 , whereas swamp buffalo was proposed to originate from the border region between south China and north Indochina 6, 17 .…”

Section: Introductionmentioning

confidence: 99%

“…Domestication of river buffalo most likely took place in the Indian subcontinent 15 , whereas swamp buffalo was proposed to originate from the border region between south China and north Indochina 6, 17 . However, the fragmentary buffalo mtDNA sequences from rDNA, COII, and cytochrome b loci reported to date 5–7, 18 , confound quantitative inferences of population history.…”

Section: Introductionmentioning

confidence: 99%

Whole Mitogenomes Reveal the History of Swamp Buffalo: Initially Shaped by Glacial Periods and Eventually Modelled by Domestication

Wang

Chen

Capodiferro

et al. 2017

Sci Rep

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The newly sequenced mitochondrial genomes of 107 Asian swamp buffalo (Bubalus bubalis carabensis) allowed the reconstruction of the matrilineal divergence since ~900 Kya. Phylogenetic trees and Bayesian skyline plots suggest a role of the glacial periods in the demographic history of swamp buffalo. The ancestral swamp-buffalo mitogenome is dated ~232 ± 35 Kya. Two major macro-lineages diverged during the 2nd Pleistocene Glacial Period (~200–130 Kya), but most (~99%) of the current matrilines derive from only two ancestors (SA1′2 and SB) that lived around the Last Glacial Maximum (~26–19 Kya). During the late Holocene optimum (11–6 Kya) lineages differentiated further, and at least eight matrilines (SA1, SA2, SB1a, SB1b, SB2a, SB2b, SB3 and SB4) were domesticated around 7–3 Kya. Haplotype distributions support an initial domestication process in Southeast Asia, while subsequent captures of wild females probably introduced some additional rare lineages (SA3, SC, SD and SE). Dispersal of domestic buffaloes created local population bottlenecks and founder events that further differentiated haplogroup distributions. A lack of maternal gene flow between neighboring populations apparently maintained the strong phylogeography of the swamp buffalo matrilines, which is the more remarkable because of an almost complete absence of phenotypic differentiation.

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“…Since water buffalo were domesticated 3000-6000 years ago, they have had economic importance as dairy, meat, and draught animals, in many highly populated countries 1-3. The animals are typically found in tropical and subtropical forests, wet grasslands, marshes and swamps.…”

Section: Introductionmentioning

confidence: 99%

“…Buffaloes are thought to have been introduced into Italy from central Europe in the sixth century or by the Bay of Tunis in the seventh century at the same time as the Arab conquests. Introduction of water buffalo populations into Australia, Africa, and the Americas has taken place only recently 1, 3.…”

Section: Introductionmentioning

confidence: 99%

Water Buffalo Genome Science Comes of Age

Michelizzi¹,

Dodson²,

Pan³

et al. 2010

Int. J. Biol. Sci.

117

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The water buffalo is vital to the lives of small farmers and to the economy of many countries worldwide. Not only are they draught animals, but they are also a source of meat, horns, skin and particularly the rich and precious milk that may be converted to creams, butter, yogurt and many cheeses. Genome analysis of water buffalo has advanced significantly in recent years. This review focuses on currently available genome resources in water buffalo in terms of cytogenetic characterization, whole genome mapping and next generation sequencing. No doubt, these resources indicate that genome science comes of age in the species and will provide knowledge and technologies to help optimize production potential, reproduction efficiency, product quality, nutritional value and resistance to diseases. As water buffalo and domestic cattle, both members of the Bovidae family, are closely related, the vast amount of cattle genetic/genomic resources might serve as shortcuts for the buffalo community to further advance genome science and biotechnologies in the species.

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Y‐chromosomal variation confirms independent domestications of swamp and river buffalo

Cited by 66 publications

References 15 publications

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Molecular cloning, sequence characterization, and gene expression profiling of a novel water buffalo (Bubalus bubalis) gene, AGPAT6

Whole Mitogenomes Reveal the History of Swamp Buffalo: Initially Shaped by Glacial Periods and Eventually Modelled by Domestication

Water Buffalo Genome Science Comes of Age

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