Genetic analysis of 29 Y-STR loci in the Chinese Han population from Shanghai

Genetic Reconstruction and Forensic Analysis of Chinese Shandong and Yunnan Han Populations by Co-Analyzing Y Chromosomal STRs and SNPs

“…We found 10 copy number variations (CNVs): DYS518 (37/38), DYS390 (23/24), DYS437 (15/16), DYS389 I (12/13), DYS576 (19/21), DYS456 (15/16 and 17/18), DYS385 (13/19/20), and DYF387S1 (34/35/36) in other 10 samples. After searching in the YHRD database and other referenced publications [ 29 , 34 , 35 , 36 , 37 , 56 , 57 , 58 , 59 , 60 , 61 , 62 , 63 , 64 ], DYS570 (19.2), DYS481 (23.2), DYF387S1 (35.3/35.3, 36.3/40, 35.3/37.3, 37.3/39 and 36.3/38.3), DYS385 (12.1,13.1), DYS576 (19,21), and DYS456 (15,16) were reported for the first time. All samples with variants are co-listed with their Y haplogroup affiliations in Table S2 .…”

“…Till now, a huge number of 27 Y-STR haplotypes have been published worldwide. First and foremost, in order to verify the population genetic backgrounds of the collected samples, a phylogenetic relationship analysis based on 27 Y-STR haplotypes in AmpFLSTR™ Yfiler™ PCR Amplification Kit (Thermo Fisher Scientific) [28] was performed by comparing Shandong and Yunnan Han populations with other 13 referenced populations, including Guangxi Zhuang (n = 2314) [29], Hulun Buir Mongolian (n = 282) [30], Xinjiang Uyghur (n = 161), Xinjiang Kazak (n = 130) [31], Yunnan Yi (n = 66) [32], Tibet Chamdo Tibetan (n = 172), Tibet Shigatse Tibetan populations (n = 230) [33], and Han groups from Guangdong (n = 247) [34], Shenzhen (n = 136) [35], Hainan (n = 473) [36], Shanghai (n = 843) [37], Changzhou, Jiangsu (n = 1550) [38], and Jining, Shandong (n = 877) [39]. Software Arlequin (version: 3.5.2.2) [40] was utilized to conduct an analysis of molecular variance (AMOVA, [41]).…”

Population genetic analysis of 36 Y-chromosomal STRs yields comprehensive insights into the forensic features and phylogenetic relationship of Chinese Tai-Kadai-speaking Bouyei

“…Comprehensive populations comparisons at different scales based on Y-chromosomal STR haplotype data were performed to investigate genetic similarities and differences between our studied population and reference populations. Pairwise Rst was computed based on 27 Y-STR loci (Y-filer Plus set) between Guizhou Bouyei and reference populations extracted from the Y Chromosome Haplotype Reference database YHRD[17], including 9 Han populations (Guangxi Han, Henan Han[18, 19], Jiangxi Han, Nantong Han[20], Shanghai Han[21], Zhejiang Han). 18 Chinese minority ethnic groups (Inner Mongolia Daur, Gansu Dongxiang[22], Guizhou Gelao, Gansu Hui[23], Xinjiang Hui, Xinjiang Kazakh, Yanbian Korean, Hainan Li[24, 25], Hainan Lingao[26], Guizhou Miao, Gansu Tibetan, Qinghai Tibetan[27], Hubei Tujia, Xinjiang Uighur, Guizhou, Sichuan and Yunnan Yi[28], Guangxi Zhuang[29]), 36 worldwide populations (Lithuania Lithuanian[30], Poland Polish, Russian Federation Russian, Denmark Danish, Berlin-Brandenburg German[3], Ljubljana Slovenia Slovenian, Budapest Hungary Hungarian, Libya Arab Jewish[31], Algeria Mozabite Berber[31], Morocco[31], Egypt [31], Djibouti Somali Afar, Somalia Somali, Ethiopia[32], Macedonia Macedonian, Italy Italian[33], Bergamo Italy Italian, Switzerland Swiss[34], Ireland Irish[35], Madrid, Spain Spanish, Singapore Malay, Laos Laotian, Thailand Thai, Guangdong Han[36], Dezhou Han, Cebu Philippines Cebuano, South Korea Korean, Daejeon South Korea Korean[37], Aomori Japan Japanese, Ehime, Japan Japanese, Gunma Japan Japanese, Hyogo Japan Japanese, Okayama Japan Japanese, Okinawa Japan Japanese, Eritrea Saho, 17 meta-populations (Belgium, Denmark, Germany, India, Kenya, Russian Federation, Singapore, Somalia, South Korea, Spain, United States (S1 Table).…”

Genetic Polymorphisms of 44 Y Chromosomal Genetic Markers in the Inner Mongolia Han Population and Its Genetic Relationship Analysis with Other Reference Populations

“…Feng et al [34] assessed the genetic polymorphisms of 50 Y-STRs in Dong, Miao, Tujia and Yao populations, and they also found some diploid variations at single-copy Y-STRs (DYS557, DYS570, DYS439 and DYS576 loci). Additionally, Zhou et al [29] investigated genetic distributions of 29 Y-STRs in the Shanghai Han population, and they detected tri-allelic patterns at DYF387S1 and DYS385a,b loci, which might be related to the extra copies of these loci in Y chromosome; besides, given that small differences of repeat numbers between alleles at these Y-STRs, they proposed that these extra copies might result from the germline rearrangement of some regions on the Y chromosome. Therefore, we speculated that these additional allele variations might be due to the extra copies of these loci in the Y chromosome, which also needed to be verified via Sanger sequencing.…”