Genome-wide runs of homozygosity signatures in diverse Indian goat breeds

Kar, Dibyasha; Ganguly, Indrajit; Singh, Sanjeev; Bhatia, Avnish Kumar; Dixit, S. P.

doi:10.1007/s13205-024-03921-y

Cited by 4 publications

(1 citation statement)

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“…It has been reported that PDCD1LG2 in Bohuai goats and SVIL in Bos indicus are related to immunity [69,70]. PRDM16 is key in regulating the formation of brown fat cells and the production of brown fat [71][72][73]. PRDM16 is also related to cold tolerance.…”

Section: Functional Enrichment Analysismentioning

confidence: 99%

Genomic Inbreeding and Runs of Homozygosity Analysis of Cashmere Goat

Zhao,

Huang,

Chen

et al. 2024

Animals

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Cashmere goats are valuable genetic resources which are famous worldwide for their high-quality fiber. Runs of homozygosity (ROHs) have been identified as an efficient tool to assess inbreeding level and identify related genes under selection. However, there is limited research on ROHs in cashmere goats. Therefore, we investigated the ROH pattern, assessed genomic inbreeding levels and examined the candidate genes associated with the cashmere trait using whole-genome resequencing data from 123 goats. Herein, the Inner Mongolia cashmere goat presented the lowest inbreeding coefficient of 0.0263. In total, we identified 57,224 ROHs. Seventy-four ROH islands containing 50 genes were detected. Certain identified genes were related to meat, fiber and milk production (FGF1, PTPRM, RERE, GRID2, RARA); fertility (BIRC6, ECE2, CDH23, PAK1); disease or cold resistance and adaptability (PDCD1LG2, SVIL, PRDM16, RFX4, SH3BP2); and body size and growth (TMEM63C, SYN3, SDC1, STRBP, SMG6). 135 consensus ROHs were identified, and we found candidate genes (FGF5, DVL3, NRAS, KIT) were associated with fiber length or color. These findings enhance our comprehension of inbreeding levels in cashmere goats and the genetic foundations of traits influenced by selective breeding. This research contributes significantly to the future breeding, reservation and use of cashmere goats and other goat breeds.

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