A Genome Sequence of Novel SARS-CoV Isolates: the Genotype, GD-Ins29, Leads to a Hypothesis of Viral Transmission in South China

Qin, E’de; He, Xionglei; Tian, Wei; Liu, Yong; Li, Wei; Wen, Jie; Wang, Jingqiang; Fan, Baochang; Wu, Qingfa; Chang, Guohui; Cao, Wuchun; Xu, Zuyuan; Yang, Ruifu; Wang, Jing; Yu, Man; Li, Yan; Xu, Jing; Si, Bingyin; Hu, Yongwu; Peng, Wenming; Tang, Lin; Jiang, Tao; Shi, Jianping; Ji, Jia; Zhang, Yu; Ye, Jia; Wang, Cui’e; Han, Yujun; Zhou, Jun; Deng, Yajun; Li, Xiaoyu; Hu, Jianfei; Wang, Caiping; Yan, Chunxia; Zhang, Qingrun; Bao, Jingyue; Li, Guoqing; Chen, Weijun; Fang, Lin; Li, Changfeng; Lei, Meng; Li, Dawei; Tong, Wei; Tian, Xiangjun; Wang, Jin; Zhang, Bo; Zhang, Haiqing; Zhang, Yilin; Zhao, Hui; Zhang, Xiaowei; Li, Shuangli; Cheng, Xiaojie; Zhang, Xiuqing; Liu, Bin; Zeng, Changqing; Li, Songgang; Tan, Xuehai; Liu, Siqi; Dong, Wei; Wang, Jun; Wong, Gane Ka-Shu; Yu, Jun; Wang, Jian; Zhu, Qingyu; Yang, Huanming

Since the deletion is very significant in size, we reasoned that it might have been affected by the host factors. Upon searching the sequence against public human sequence databases, we have found two seemingly interesting matches of 17-nt segments in the center of the sequence to three human chromosomal locations. One (5′-GGUUACCAACCUGAAUG-3′) was aligned to protein coding sequences mapped to two chromosomal locations: 15q23 and 9q22; the other (5′-UGGUUACCAACCUGAAU-3′) matches to a sequence segment on chromosome 11, which overlaps with a repetitive sequence of the mammalian interspersed repeat, or MIR, and is most likely non-protein coding. The protein-coding sequences are both members of acidic (leucine-rich) nuclear phosphoprotein 32 family 6., 7.. Exhaustive database searches did not yield any other significant matching sequence in the human genomic sequence databases.