Mitochondrial control region genetic diversity and maternal ancestry of a Brangus-Ibage cattle populations

Abstract

The genetic diversity of 277 nucleotides in the mitochondrial DNA control region (nt 15,964 to 16,240 in reference sequence) was analyzed in crossbreed beef cattle (Brangus-Ibage, 5/8 Bos primigenius taurus x 3/8 Bos primigenius indicus) as well as in some Nellore samples (B. p. indicus). Fifty-seven mutations were found in Brangus-Ibage comprising 18 haplotypes (haplotype diversity, h = 0.851 ± 0.041 and nucleotide diversity, ntd = 0.009 ± 0.006) and 66 in Nellore (h = 1.00 ± 0.27, ntd = 0.014 ± 0.012). These data indicated sequence identities of 99.6 and 92.1% between the B. p. taurus' reference sequence and Brangus-Ibage and Nellore, respectively. The comparison of our data with sequence data for 612 individuals recovered from GenBank showed a total of 205 haplotypes defined by 99 polymorphic sites. Most of the variability (53%) was due to differentiation within breeds. The phylogenetic tree constructed using the neighbor-joining method showed clearly the well-known dichotomy between B. p. taurus and B. p. indicus. The Brangus-Ibage clustered with B. p. taurus lineages; however, the displacement of Nellore from B. p. indicus branch probably indicates a substantial B. p. taurus maternal ancestry in some Nellore samples (obtained from GenBank) and reflects the primarily male-driven introduction of this breed in Brazil.

Mitochondrial DNA Diversity and Origin of Red Chittagong Cattle

“…In total, 44 variable substitutions were determined in the mtDNAs from 25 haplotypes of RC cattle. Among them, 39 substitutions were transitions and 5 were transversions (transitions/transversions rate = 7.80) indicating a heavy bias towards transition substitution that has previously been reported for bovine mtDNA (Loftus et al, 1994;Mannen et al, 1998;Henkes et al, 2005).…”

“…The validity of this partition tested by permutation test was highly significant (p<0.001). The current variability due to differentiation within population is higher than those verified in Brangus-Ibage (crossbred) and Nellore (Bos indicus) cattle (Henkes et al, 2005).…”

“…They reported the nucleotide diversities among the thirteen Bos indicus Chinese breeds/population varied from 0.0042±0.0008 to 0.0063±0.0022 and did not present a pattern of lower genetic diversity like endangered breed. The nucleotide diversity and mean pairwise differences were observed in Brangus-Ibage (0.009±0.006 and 1.91± 1.11) and Nellore cattle (0.014±0.012 and 4.00±2.72) by Henkes et al (2005). In another investigation, Troy et al (2001) found pairwise differences varied greatly from 3.97±2.03 to 1.47±0.91 in Near-Eastern European cattle (Bos taurus).…”

Diversity of D-loop mitochondrial DNA (mtDNA) sequence in Bali and Sumba Ongole cattle breeds

“…The number of haplotypes is a proper indicator of diversity derived from the maternal line (Ivankovic et al, 2014). Genetic diversity based on haplotype diversity (Hd) and nucleotide diversity (Pi) studied in sequence of D-loop mtDNA has been reported in 27 Podolian cattle breeds reaching 0.837 and 0.010 (Lorenzo et al, 2018), Brahman cattle reaching 0.978 and 0.0143 (Qu and Wu, 2006), Brangus-Ibage cattle reaching 0.581 and 0.009 (Henkes et al, 2005) as well as Chinese Wuchuan Black cattle reaching 0.909 and 0.055 (Yang et al, 2014). Our current investigation demonstrated that haplotype diversity and nucleotide diversity in Bali cattle reached 0.625 and 0.026, while SO cattle reached 0.900 and 0.006.…”