biostudies-literatureUlfah Mthe Ministry of Education, Culture, Sports, Science and Technology320https://www.ebi.ac.uk/biostudies/studies/S-EPMC4855759biostudies-literatureUnknown17<h4>Background</h4>More than 2,500 breeds of chicken are reared throughout the world as a source of eggs or meat and as pets. The primary ancestor of the present domestic chicken is widely believed to be the red junglefowl, although genetic contributions from other junglefowls cannot be excluded entirely. The reference genome for chicken was obtained from a red junglefowl, the genetic purity of which has been debated. There is, at present, insufficient data to resolve these interesting issues.<h4>Results</h4>In this study, we performed whole-genome sequencing to compare various species and breeds of chicken, including wild red and green junglefowl, as well as the Indonesian native chickens Sumatera and Kedu Hitam and their respective descendants, the American Black Sumatra and Black Java. BMC genomicsGenetic features of red and green junglefowls and relationship with Indonesian native chickens Sumatera and Kedu Hitam.PMC4855759S0201025Farajalllah AKono TDorshorst BKawahara-Miki RUlfah MMuladno MMartin AfalseGenetic features of red and green junglefowls and relationship with Indonesian native chickens Sumatera and Kedu Hitam.<h4>Background</h4>More than 2,500 breeds of chicken are reared throughout the world as a source of eggs or meat and as pets. The primary ancestor of the present domestic chicken is widely believed to be the red junglefowl, although genetic contributions from other junglefowls cannot be excluded entirely. The reference genome for chicken was obtained from a red junglefowl, the genetic purity of which has been debated. There is, at present, insufficient data to resolve these interesting issues.<h4>Results</h4>In this study, we performed whole-genome sequencing to compare various species and breeds of chicken, including wild red and green junglefowl, as well as the Indonesian native chickens Sumatera and Kedu Hitam and their respective descendants, the American Black Sumatra and Black Java. 2016-01-01T00:00:00Z2016 May2026-06-14T09:45:32.617Z2019-06-06T15:46:29ZS-EPMC48557592714238710.1186/s12864-016-2652-z