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3. Non-O1, Non-O139 Vibrio cholerae Bacteremia in an Autoimmune Pancreatitis Patient.

Author

Gu, Cheng-Jing, Ding, Ming-Dong, Zhou, Da-Ming, Li, Jie, Yu, Wen-Qing, and Yang, Yong-Lin

Subjects
CHOLERA, VIBRIO cholerae, BACTEREMIA, AGGLUTINATION tests, PANCREATITIS, SYMPTOMS
Abstract

Over 200 different serogroups of Vibrio cholerae based on O-polysaccharide specificity have been described worldwide, including the two most important serogroups, O1 and O139. Non-O1/non-O139 V. cholerae serogroups generally do not produce the cholera-causing toxin but do sporadically cause gastroenteritis and extra-intestinal infections. Recently, however, bloodstream infections caused by non-O1/non-O139 V. cholerae are being increasingly reported, and these infections are associated with high mortality in immunocompromised hosts. We describe a case of non-O1/non-O139 V. cholerae bacteremia in a patient with autoimmune pancreatitis and stenosis of the intra- and extrahepatic bile ducts. The clinical manifestations of bacteremia were fever and mild digestive symptoms. The blood cultures showed V. cholerae, which was identified as a non-O1, non-O139 serogroup by slide agglutination tests and PCR. The bloodstream infection of the patient was likely caused by the consumption of contaminated seafood at a banquet. The patient recovered after the administration of a third-generation cephalosporin. Non-O1/non-O139 V. cholerae infection presents with or without gastrointestinal manifestations; close attention should be paid to the possibility of disseminated non-O1/non-O139 V. cholerae infection in high-risk patients. [ABSTRACT FROM AUTHOR]

Published
2024
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6. Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits

Author

Li, Xin, Yang, Ji, Shen, Min, Xie, Xing-Long, Liu, Guang-Jian, Xu, Ya-Xi, Lv, Feng-Hua, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Zhou, Ping, Wan, Peng-Cheng, Zhang, Yun-Sheng, Gao, Lei, Yang, Jing-Quan, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Deng, Juan, Xu, Song-Song, Salehian-Dehkordi, Hosein, Hehua, Eer, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Štěpánek, Ondřej, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Lenstra, Johannes A., Kantanen, Juha, Coltman, David W., Kijas, James W., Bruford, Michael W., Periasamy, Kathiravan, Wang, Xin-Hua, and Li, Meng-Hua

Published
2020
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7. Supplementary Material for Whole-genome resequencing of worldwide wild and domestic sheep elucidates genetic diversity, introgression and agronomically important loci

Author

Li, Meng-Hua [menghua.li@cau.edu.cn], Lv, Feng-Hua, Cao, Yin-Hong, Liu, Guang-Jian, Luo, Ling-Yun, Lu, Ran, Liu, Ming-Jun, Li, Wen-Rong, Zhou, Ping, Wang, Xin-Hua, Shen, Min, Gao, Lei, Yang, Jing-Quan, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Wan, Peng-Cheng, Zhang, Yun-Sheng, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Wang, Yu-Tao, Li, Jin-Quan, Salehian-Dehkordi, Hosein, Hehua, Eer, Liu, Yong-Gang, Chen, Jian-Fei, Wang, Jian-Kui, Deng, Xue-Mei, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Charati, Hadi, Nosrati, Maryam, Štěpánek, Ondřej, Rushdi, Hossam E., Olsaker, Ingrid, Curik, Ino, Gorkhali, Neena A., Paiva, S. R., Caetano, Alexander R., Ciani, Elena, Amills, Marcel, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Periasamy, Kathiravan, Johansson, Anna M., Hallsson, Jón H., Kantanen, Juha, Coltman, David W., Bruford, Michael W., Lenstra, Johannes A., Li, Meng-Hua, Li, Meng-Hua [menghua.li@cau.edu.cn], Lv, Feng-Hua, Cao, Yin-Hong, Liu, Guang-Jian, Luo, Ling-Yun, Lu, Ran, Liu, Ming-Jun, Li, Wen-Rong, Zhou, Ping, Wang, Xin-Hua, Shen, Min, Gao, Lei, Yang, Jing-Quan, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Wan, Peng-Cheng, Zhang, Yun-Sheng, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Wang, Yu-Tao, Li, Jin-Quan, Salehian-Dehkordi, Hosein, Hehua, Eer, Liu, Yong-Gang, Chen, Jian-Fei, Wang, Jian-Kui, Deng, Xue-Mei, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Charati, Hadi, Nosrati, Maryam, Štěpánek, Ondřej, Rushdi, Hossam E., Olsaker, Ingrid, Curik, Ino, Gorkhali, Neena A., Paiva, S. R., Caetano, Alexander R., Ciani, Elena, Amills, Marcel, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Periasamy, Kathiravan, Johansson, Anna M., Hallsson, Jón H., Kantanen, Juha, Coltman, David W., Bruford, Michael W., Lenstra, Johannes A., and Li, Meng-Hua

Published
2022

8. Whole-genome resequencing of worldwide wild and domestic sheep elucidates genetic diversity, introgression, and agronomically important loci

Author

National Natural Science Foundation of China, National Key Research and Development Program (China), Chinese Academy of Sciences, Lv, Feng-Hua, Cao, Yin-Hong, Liu, Guang-Jian, Luo, Ling-Yun, Lu, Ran, Liu, Ming-Jun, Li, Wen-Rong, Zhou, Ping, Wang, Xin-Hua, Shen, Min, Gao, Lei, Yang, Jing-Quan, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Wan, Peng-Cheng, Zhang, Yun-Sheng, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Wang, Yu-Tao, Li, Jin-Quan, Salehian-Dehkordi, Hosein, Hehua, Eer, Liu, Yong-Gang, Chen, Jian-Fei, Wang, Jian-Kui, Deng, Xue-Mei, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Charati, Hadi, Nosrati, Maryam, Štěpánek, Ondřej, Rushdi, Hossam E., Olsaker, Ingrid, Curik, Ino, Gorkhali, Neena A., Paiva, S. R., Caetano, Alexander R., Ciani, Elena, Amills, Marcel, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Periasamy, Kathiravan, Johansson, Anna M., Hallsson, Jón H., Kantanen, Juha, Coltman, David W., Bruford, Michael W., Lenstra, Johannes A., Li, Meng-Hua, National Natural Science Foundation of China, National Key Research and Development Program (China), Chinese Academy of Sciences, Lv, Feng-Hua, Cao, Yin-Hong, Liu, Guang-Jian, Luo, Ling-Yun, Lu, Ran, Liu, Ming-Jun, Li, Wen-Rong, Zhou, Ping, Wang, Xin-Hua, Shen, Min, Gao, Lei, Yang, Jing-Quan, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Wan, Peng-Cheng, Zhang, Yun-Sheng, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Wang, Yu-Tao, Li, Jin-Quan, Salehian-Dehkordi, Hosein, Hehua, Eer, Liu, Yong-Gang, Chen, Jian-Fei, Wang, Jian-Kui, Deng, Xue-Mei, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Charati, Hadi, Nosrati, Maryam, Štěpánek, Ondřej, Rushdi, Hossam E., Olsaker, Ingrid, Curik, Ino, Gorkhali, Neena A., Paiva, S. R., Caetano, Alexander R., Ciani, Elena, Amills, Marcel, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Periasamy, Kathiravan, Johansson, Anna M., Hallsson, Jón H., Kantanen, Juha, Coltman, David W., Bruford, Michael W., Lenstra, Johannes A., and Li, Meng-Hua

Abstract

Domestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (∼16.10×) whole genomes of 810 samples from 7 wild species and 158 diverse domestic populations. We detected, in total, ∼121.2 million single nucleotide polymorphisms, ∼61 million of which are novel. Some display significant (P < 0.001) differences in frequency between wild and domestic species, or are private to continent-wide or individual sheep populations. Retained or introgressed wild gene variants in domestic populations have contributed to local adaptation, such as the variation in the HBB associated with plateau adaptation. We identified novel and previously reported targets of selection on morphological and agronomic traits such as stature, horn, tail configuration, and wool fineness. We explored the genetic basis of wool fineness and unveiled a novel mutation (chr25: T7,068,586C) in the 3′-UTR of IRF2BP2 as plausible causal variant for fleece fiber diameter. We reconstructed prehistorical migrations from the Near Eastern domestication center to South-and-Southeast Asia and found two main waves of migrations across the Eurasian Steppe and the Iranian Plateau in the Early and Late Bronze Ages. Our findings refine our understanding of genome variation as shaped by continental migrations, introgression, adaptation, and selection of sheep.

Published
2022

9. Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci

Author

Lv, Feng-Hua, Cao, Yin-Hong, Liu, Guang-Jian, Luo, Ling-Yun, Lu, Ran, Liu, Ming-Jun, Li, Wen-Rong, Zhou, Ping, Wang, Xin-Hua, Shen, Min, Gao, Lei, Yang, Jing-Quan, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Wan, Peng-Cheng, Zhang, Yun-Sheng, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Li, Jin-Quan, Salehian-Dehkordi, Hosein, Hehua, Eer, Liu, Yong-Gang, Chen, Jian-Fei, Wang, Jian-Kui, Deng, Xue-Mei, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Charati, Hadi, Nosrati, Maryam, Stepanek, Ondrej, Rushdi, Hossam E., Olsaker, Ingrid, Curik, Ino, Gorkhali, Neena A., Paiva, Samuel R., Caetano, Alexandre R., Ciani, Elena, Amills, Marcel, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M., Han, Jian-Lin, Hanotte, Olivier, Periasamy, Kathiravan, Johansson, Anna Maria, Hallsson, Jon H., Kantanen, Juha, Coltman, David W., Bruford, Michael W., Lenstra, Johannes A., and Li, Meng-Hua

Subjects
Evolutionary Biology
Abstract

Domestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (similar to 16.10x) whole genomes of 810 samples from 7 wild species and 158 diverse domestic populations. We detected, in total, similar to 121.2 million single nucleotide polymorphisms, similar to 61 million of which are novel. Some display significant (P < 0.001) differences in frequency between wild and domestic species, or are private to continent-wide or individual sheep populations. Retained or introgressed wild gene variants in domestic populations have contributed to local adaptation, such as the variation in the HBB associated with plateau adaptation. We identified novel and previously reported targets of selection on morphological and agronomic traits such as stature, horn, tail configuration, and wool fineness. We explored the genetic basis of wool fineness and unveiled a novel mutation (chr25: T7,068,586C) in the 3 '-UTR of IRF2BP2 as plausible causal variant for fleece fiber diameter. We reconstructed prehistorical migrations from the Near Eastern domestication center to South-and-Southeast Asia and found two main waves of migrations across the Eurasian Steppe and the Iranian Plateau in the Early and Late Bronze Ages. Our findings refine our understanding of genome variation as shaped by continental migrations, introgression, adaptation, and selection of sheep.

Published
2022

10. Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci

Author

Lv, Feng-Hua, primary, Cao, Yin-Hong, additional, Liu, Guang-Jian, additional, Luo, Ling-Yun, additional, Lu, Ran, additional, Liu, Ming-Jun, additional, Li, Wen-Rong, additional, Zhou, Ping, additional, Wang, Xin-Hua, additional, Shen, Min, additional, Gao, Lei, additional, Yang, Jing-Quan, additional, Yang, Hua, additional, Yang, Yong-Lin, additional, Liu, Chang-Bin, additional, Wan, Peng-Cheng, additional, Zhang, Yun-Sheng, additional, Pi, Wen-Hui, additional, Ren, Yan-Ling, additional, Shen, Zhi-Qiang, additional, Wang, Feng, additional, Wang, Yu-Tao, additional, Li, Jin-Quan, additional, Salehian-Dehkordi, Hosein, additional, Hehua, Eer, additional, Liu, Yong-Gang, additional, Chen, Jian-Fei, additional, Wang, Jian-Kui, additional, Deng, Xue-Mei, additional, Esmailizadeh, Ali, additional, Dehghani-Qanatqestani, Mostafa, additional, Charati, Hadi, additional, Nosrati, Maryam, additional, Štěpánek, Ondřej, additional, Rushdi, Hossam E, additional, Olsaker, Ingrid, additional, Curik, Ino, additional, Gorkhali, Neena A, additional, Paiva, Samuel R, additional, Caetano, Alexandre R, additional, Ciani, Elena, additional, Amills, Marcel, additional, Weimann, Christina, additional, Erhardt, Georg, additional, Amane, Agraw, additional, Mwacharo, Joram M, additional, Han, Jian-Lin, additional, Hanotte, Olivier, additional, Periasamy, Kathiravan, additional, Johansson, Anna M, additional, Hallsson, Jón H, additional, Kantanen, Juha, additional, Coltman, David W, additional, Bruford, Michael W, additional, Lenstra, Johannes A, additional, and Li, Meng-Hua, additional

Published
2021
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13. Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits

Author

Sub Cellular Protein Chemistry, One Health Toxicologie, Afd Pharmacology, Li, Xin, Yang, Ji, Shen, Min, Xie, Xing-Long, Liu, Guang-Jian, Xu, Ya-Xi, Lv, Feng-Hua, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Zhou, Ping, Wan, Peng-Cheng, Zhang, Yun-Sheng, Gao, Lei, Yang, Jing-Quan, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Deng, Juan, Xu, Song-Song, Salehian-Dehkordi, Hosein, Hehua, Eer, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Štěpánek, Ondřej, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M, Han, Jian-Lin, Hanotte, Olivier, Lenstra, Johannes A, Kantanen, Juha, Coltman, David W, Kijas, James W, Bruford, Michael W, Periasamy, Kathiravan, Wang, Xin-Hua, Li, Meng-Hua, Sub Cellular Protein Chemistry, One Health Toxicologie, Afd Pharmacology, Li, Xin, Yang, Ji, Shen, Min, Xie, Xing-Long, Liu, Guang-Jian, Xu, Ya-Xi, Lv, Feng-Hua, Yang, Hua, Yang, Yong-Lin, Liu, Chang-Bin, Zhou, Ping, Wan, Peng-Cheng, Zhang, Yun-Sheng, Gao, Lei, Yang, Jing-Quan, Pi, Wen-Hui, Ren, Yan-Ling, Shen, Zhi-Qiang, Wang, Feng, Deng, Juan, Xu, Song-Song, Salehian-Dehkordi, Hosein, Hehua, Eer, Esmailizadeh, Ali, Dehghani-Qanatqestani, Mostafa, Štěpánek, Ondřej, Weimann, Christina, Erhardt, Georg, Amane, Agraw, Mwacharo, Joram M, Han, Jian-Lin, Hanotte, Olivier, Lenstra, Johannes A, Kantanen, Juha, Coltman, David W, Kijas, James W, Bruford, Michael W, Periasamy, Kathiravan, Wang, Xin-Hua, and Li, Meng-Hua

Published
2020

14. Hepatitis B surface antigen variants in voluntary blood donors in Nanjing, China

Author

Huang Zu-hu, Zhang Ming-shun, Fu Qiang, Yang Yong-lin, Cai Xu-bing, Cai Jie, and Ma Gui-ming

Subjects
Adult, Male, HBsAg, China, Hepatitis B virus, Blood transfusion, Genotype, medicine.medical_treatment, Mutation, Missense, Blood Donors, Biology, medicine.disease_cause, lcsh:Infectious and parasitic diseases, Antigen, Virology, medicine, Prevalence, Humans, lcsh:RC109-216, Hepatitis, Molecular Epidemiology, Hepatitis B Surface Antigens, Molecular epidemiology, Research, Genetic Variation, Sequence Analysis, DNA, Hepatitis B, Middle Aged, medicine.disease, Infectious Diseases, Hepatitis B surface antigen, Immunology, DNA, Viral, Mutation, Female
Abstract

Background Hepatitis B virus (HBV) is still one of the serious infectious risks for the blood transfusion safety in China. One plausible reason is the emergence of the variants in the major antigenic alpha determinant within the major hydrophilic region (MHR) of hepatitis B surface antigen (HBsAg), which have been assumed to evade the immune surveillance and pose a challenge to the disease diagnosis. It is well documented that some commercial ELISA kits could detect the wild-type but not the mutant viruses. The high prevalence of HBV in China also impaired the application of nucleic acid testing (NAT) in the improvement of blood security. Molecular epidemiological study of HBsAg variations in China is still limited. This study was designed to identify the prevalence of mutations in the HBsAg in voluntary blood donors in Nanjing, China. Methods A total of 20,326 blood units were enrolled in this study, 39 donors were positive for HBV S gene in the nested-PCR. Mutations in the major hydrophilic region (MHR; aa 99-169) were identified by direct sequencing of S region. Results Among of 20,326 blood units in the Red Cross Transfusion Center of Nanjing from October 2008 to April 2009, 296 samples (1.46%, 296/20,326) were HBsAg positive in the 2 successive rounds of the ELISA test. In these HBsAg positive units, HBV S gene could be successfully amplified from 39 donors (13.18%, 39/296) in the nested-PCR. Sequence analysis revealed that 32 strains (82.1%, 32/39) belong to genotype B, 7 strains (17.9%, 7/39) to genotype C. Besides well known G145R, widely dispersed variations in the MHR of S region, were observed in 20 samples of all the strains sequenced. Conclusions HBV/B and HBV/C are dominant in Nanjing, China. The mutations in the MHR of HBsAg associated with disease diagnosis are common.

Published
2012

15. Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci.

Author

Lv FH, Cao YH, Liu GJ, Luo LY, Lu R, Liu MJ, Li WR, Zhou P, Wang XH, Shen M, Gao L, Yang JQ, Yang H, Yang YL, Liu CB, Wan PC, Zhang YS, Pi WH, Ren YL, Shen ZQ, Wang F, Wang YT, Li JQ, Salehian-Dehkordi H, Hehua E, Liu YG, Chen JF, Wang JK, Deng XM, Esmailizadeh A, Dehghani-Qanatqestani M, Charati H, Nosrati M, Štěpánek O, Rushdi HE, Olsaker I, Curik I, Gorkhali NA, Paiva SR, Caetano AR, Ciani E, Amills M, Weimann C, Erhardt G, Amane A, Mwacharo JM, Han JL, Hanotte O, Periasamy K, Johansson AM, Hallsson JH, Kantanen J, Coltman DW, Bruford MW, Lenstra JA, and Li MH

Subjects
Animals, Asia, Europe, Genetic Variation, Iran, Polymorphism, Single Nucleotide, Sequence Analysis, DNA, Sheep genetics, Genome, Sheep, Domestic genetics
Abstract

Domestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (∼16.10×) whole genomes of 810 samples from 7 wild species and 158 diverse domestic populations. We detected, in total, ∼121.2 million single nucleotide polymorphisms, ∼61 million of which are novel. Some display significant (P < 0.001) differences in frequency between wild and domestic species, or are private to continent-wide or individual sheep populations. Retained or introgressed wild gene variants in domestic populations have contributed to local adaptation, such as the variation in the HBB associated with plateau adaptation. We identified novel and previously reported targets of selection on morphological and agronomic traits such as stature, horn, tail configuration, and wool fineness. We explored the genetic basis of wool fineness and unveiled a novel mutation (chr25: T7,068,586C) in the 3'-UTR of IRF2BP2 as plausible causal variant for fleece fiber diameter. We reconstructed prehistorical migrations from the Near Eastern domestication center to South-and-Southeast Asia and found two main waves of migrations across the Eurasian Steppe and the Iranian Plateau in the Early and Late Bronze Ages. Our findings refine our understanding of genome variation as shaped by continental migrations, introgression, adaptation, and selection of sheep., (© The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.)

Published
2022
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