Construction and preliminary characterization of a river buffalo bacterial artificial chromosome library

Stafuzza, Nedenia Bonvino; Abbey, Colette A.; Gill, C. A.; Womack, James E.; Amaral, M. E. J.

doi:10.4238/2012.may.22.6

Cited by 8 publications

(8 citation statements)

References 35 publications

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“…The river buffalo BAC library was three-dimensionally screened by PCR as described by Stafuzza et al (2012) using the following primers: forward 5ʹ-TGGCCCTCTCAGACCTGTTG-3ʹ and reverse 5ʹ-TGGCGAGGAGACTGAACACG-3ʹ (Amaral et al, 2008).…”

Section: Bacterial Artificial Chromosome (Bac) Library Screeningmentioning

confidence: 99%

“…Genomic analysis of this species has advanced significantly in the last decade with the development of methodologies such as radiation hybrid panels for whole genome mapping (Amaral et al, 2007;Stafuzza et al, 2009) and genomic BAC libraries (Stafuzza et al, 2012) for region-specific resequencing and characterization of target genes (Stafuzza et al, 2014a,b,c).…”

Section: Introductionmentioning

confidence: 99%

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Sequence analysis of the S1PR1 gene in river buffalo

et al. 2016

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Section: Bacterial Artificial Chromosome (Bac) Library Screeningmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Sequence analysis of the S1PR1 gene in river buffalo

et al. 2016

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“…Genome analysis methods have advanced significantly in the last decade and now include genomic tools such as the whole genome radiation hybrid panel used for genome mapping (Amaral et al, 2007(Amaral et al, , 2008 and the construction of a Murrah breed BAC library for resequencing of specific regions from the genome, as well as the development of high-density physical maps (Stafuzza et al, 2012). Recently, the genome sequence of the Mediterranean breed was publicly released by the National Center for Biotechnology Information database (NCBI -http://www.ncbi.nlm.nih.gov/assembly/67671).…”

Section: Introductionmentioning

confidence: 99%

Comparative analysis of the river buffalo somatostatin gene

2014

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ABSTRACT. The somatostatin protein plays a crucial role in the regulation of multiple biological functions, such as growth, fat deposition, and nutrient absorption in vertebrates. Polymorphisms in the somatostatin gene have been associated with growth traits in livestock species, including cattle and goat. In this study, we conducted complete molecular characterization of the somatostatin gene in Bubalus bubalis (Murrah breed) by sequencing a Murrah BAC clone spanning 72,489 base pairs (bp) in length. The buffalo somatostatin gene contains 1481 bp organized into a 5'-untranslated region (135 bp), exon 1 (139 bp), intron 1 (839 bp), exon 2 (212 bp), and 3'UTR (156 bp). Comparative analysis between the buffalo somatostatin DNA coding sequence and the amino acid sequence with other bovids (cattle, goat, and sheep), horse, pig, human, rodents (mouse and rat), and chicken. Identity varied from 83-99% on the DNA sequence level and 88-100% on the protein level. In addition, a comparison of gene sequences between Murrah and Mediterranean breeds revealed 6 potential single-nucleotide polymorphisms (1 in exon 1 and 5 in intron 1), which were validated in different buffalo populations. This comparative analysis provides basic information for future studies of different buffalo herds using the

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“…Recently, another genomic tool, a buffalo large-insert bacterial artificial chromosome (BAC) library, was developed for the whole buffalo genome. This library facilitated the validation and accurate assembly of genome sequences, isolation of genes and gene clusters, elucidation of gene organization, and identification of regulatory and repetitive elements (Stafuzza et al, 2012).…”

Section: Introductionmentioning

confidence: 99%

Molecular characterization of interferon regulatory factor 1 in Bubalus bubalis

Stafuzza¹,

Borges²,

Amaral-Trusty³

2015

Genet. Mol. Res.

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ABSTRACT. Interferon regulatory factor 1 (IRF1) is functionally diverse in the regulation of immune response and is considered to be an important candidate gene for studying disease susceptibility in mammals. In this paper, we characterized the whole sequence of the IRF1 gene in river buffalo (Bubalus bubalis) and compared genomic and the amino acid sequences between different species. The buffalo IRF1 gene was 7099 bp long and organized into 10 exons and nine introns. Its molecular structure showed exactly the same number of exons (10) and introns (nine) in bovids, mice, horses, humans, and chickens. However, rats did not have exon 5, but had the largest exon 4, which suggests that exon 5 was incorporated into exon 4. The coding and the amino acid sequences of the gene showed that identity varied from 73 to 99% at the coding sequence level and from 61 to 100% at the amino acid level when compared with other mammals and chickens. Comparative analysis of the gene sequence between two different buffalo breeds, Murrah and Mediterranean, revealed six potential SNPs that are primarily located in the 5' and 3'UTRs.

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Construction and preliminary characterization of a river buffalo bacterial artificial chromosome library

Cited by 8 publications

References 35 publications

Sequence analysis of the S1PR1 gene in river buffalo

Sequence analysis of the S1PR1 gene in river buffalo

Comparative analysis of the river buffalo somatostatin gene

Molecular characterization of interferon regulatory factor 1 in Bubalus bubalis

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