Occurrence of GI parasites in ruminants of Kashmir and Ladakh.

The study was conducted in Kashmir and Ladakh Divisions of the erstwhile state of Jammu and Kashmir to work out the occurrence of gastrointestinal parasites in ruminants. The qualitative faecal examination of 476 samples revealed an overall prevalence of GI parasites to the tune of 80.04% comprising of 80.61% in cattle, 96.70% in sheep and 66.27% in goats. In Kashmir overall prevalence of GI parasites was 88.33% comprising of 80.61% in cattle, 98.41% in sheep and 100% in goats. Highest prevalence was observed for strongyles (84.00%) followed by Eimeria spp. (31.67%), Moniezia spp. (20.00%), Ascaris spp. (5.33%) and Strongyloides spp. (1.67%). Mixed infection was observed in 37.67% samples. In cattle, the parasites observed were strongyles (68.37%) and Eimeria spp. (13.27%) with mixed infection in 1.02% samples. In sheep highest prevalence was observed for strongylid eggs (97.88%) followed by Eimeria spp. (43.38%), Moniezia spp. (31.74%), Ascaris spp. (8.47%) and Strongyloides spp. (2.64%) with mixed infection in 59.26% samples. Amongst goats, only strongylid eggs (100%) were observed. In Ladakh region overall prevalence of GI parasites was 65.91% with 82.61% in sheep and 63.40% in pashmina goats. Highest prevalence was observed for Eimeria spp. (63.64%) followed by strongyles (9.09%) Moniezia spp. (5.11%) and Thysanosoma spp. (1.14%). Mixed infection was observed in 13.07% samples. In sheep, highest prevalence was observed for Eimeria spp. (73.91%) followed by strongyles (17.39%) and Thysanosoma spp. (8.70%) with mixed infection in 17.39% samples. In pashmina goats, the prevalence of Eimeria spp. (62.09%) was observed highest followed by strongylid eggs (7.84%) and Moniezia spp. (5.88%) with mixed infection in 12.42% samples.

Comparative transcriptome analysis reveals the genetic basis of coat color variation in Pashmina goat.

The genetics of coat color variation remains a classic area. Earlier studies have focused on a limited number of genes involved in color determination; however, the complete set of trait determinants are still not well known. In this study, we used high-throughput sequencing technology to identify and characterize intricate interactions between genes that cause complex coat color variation in Changthangi Pashmina goats, producer of finest and costly commercial animal fiber. We systematically identified differentially expressed mRNAs and lncRNAs from black, brown and white Pashmina goat skin samples by using RNA-sequencing technique. A pairwise comparison of black, white and brown skin samples yielded 2479 significantly dysregulated genes (2422 mRNA and 57 lncRNAs). Differentially expressed genes were enriched in melanin biosynthesis, melanocyte differentiation, developmental pigmentation, melanosome transport activities GO terms. Our analysis suggested the potential role of lncRNAs on color coding mRNAs in cis and trans configuration. We have also developed online data repository as a component of the study to provide a central location for data access, visualization and interpretation accessible through http://pcd.skuastk.org/ .

Characterization and polymorphism of keratin associated protein 1.4 gene in goats.

Keratin-associated proteins (KAPs) are among the main structural components of the animal fibers and form semi-rigid matrix wherein the keratin intermediate filaments (KIFs) are embedded. Variation in the KAP genes has been reported to affect the structure of KAPs and hence fiber characteristics. As no information is available on this gene in Capra hircus therefore, present work was undertaken to characterize and explore the different polymorphic variants of KAP1.4 gene at DNA level in different breeds/genetic groups of goats of Kashmir. Cashmere (Changthangi, 30 animals) and non-Cashmere (Bakerwal and Kargil goats, 20 animals each) goats formed the experimental animals for the study. Single strand conformation polymorphism technique was employed for exploring variability at gene level. On exploring the size variability in KAP1.4 gene between Ovine and Caprine, it was concluded that sheep KAP1.4 gene has a deletion of 30 nucleotides. In comparison to published nucleotide sequences of sheep, goat sequences explored are differing at positions 174, 462 and 568 and at these positions "G", "T" and "T" nucleotides are present in sheep, but are replaced by "A", "C" and "C" respectively, in goats. By SSC studies, two genotypes were observed in each genetic group and in Bakerwal goats the genotypes were designated as A1A1 (0.40) and A1A2 (0.60) and were formed by two alleles A1 (0.70) andA2 (0.30). The different SSC patterns observed in Kargil goats were designated as B1B1 (0.35) and B1B2 (0.65) genotypes with frequencies of B1 and B2 alleles as 0.675 and 0.325, respectively. Similarly, two genotypes C1C1 (0.60) and C1C2 (0.40) were observed in Changthangi goats and the frequencies of C1 and C2 alleles were 0.80 and 0.20, respectively. These alleles were later confirmed by sequencing. The sequences of these alleles are available in NCBI under Acc. No's. JN012101.1, JN012102.1, JN000317.1, JN000318.1, JQ436929 and JQ627657. It was concluded that all the alleles observed in a breed were unique to the breed. The designated A1 and A2 alleles of Bakerwal goats differ from each other at positions 245 and the nucleotides observed were "C" or "A" and at position 605 of the nucleotide sequence "T" or "C", were observed. The designated B1 and B2 alleles of Kargil goats differed from each other at positions 224, 374, 375 and 521. The nucleotides observed in two SSC pattern were C→G, A→G, G→A and T→C, respectively. The designated C1 and C2 alleles of Changthangi goats differed from each other at one position 440 with the change of "A"→"C". Only two mutations C224G and G375A in Kargil goats resulted in change of the Cysteine (C)→Serine (S) and Alanine (A)→Threonine (T), respectively. The nucleotide sequences of KAP 1.4 gene in Bakerwal, Kargil and Changthangi goats showed 99.7% similarity with each other and 96.7% with sheep and 74.4% with mice. Average guard fiber length and diameter were 81.02±0.16 mm and 67.53±0.97 µm, respectively, and average down fiber length and diameter was 48.38±0.70 mm and 13.32±0.29 µm, respectively for Changthangi goats. Average guard fiber length and diameter were 63.51±4.52 mm and 105.31±4.48 µm, respectively for Bakerwal goats and 62.60±5.03 mm and 107.18±2.30 µm, respectively for Kargil goats. The effects of the observed genotypes on Cashmere fiber diameter, Cashmere fiber length in Changthangi goats and guard fiber length and guard fiber diameters in Changthangi, Kargil and Bakerwal goats were found to be non-significant (P>0.05).The nonsignificant association between the polymorphism and fiber attributes reported herein may be due to small sample size.

DRB3.2 gene polymorphism and its association with pashmina production in Changthangi goat.

PstI and TaqI restriction fragment length polymorphism (RFLP) of caprine DRB3.2 revealed three genotypes under each RFLP in Changthangi goat. The genotypic and allelic frequency in PstI RFLP was calculated as 0.07, 0.72 and 0.20 for PP, Pp and pp genotypes and 0.43 and 0.57 for P and p alleles. In TaqI RFLP the frequencies were observed as 0.11, 0.61 and 0.27 for TT, Tt and tt genotypes and 0.41, 0.59 for T and t alleles. Alignment study indicates variability of nucleotides and amino acids between alleles and different breeds of goats. The nucleotide sequences reported in this paper have been submitted to the European Molecular Biology Laboratory GenBank and the accession numbers were AY496935, AY496061 and AY496062. A significant affect (P