Browsing by Author "Zhang, Guojie"

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  • Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing
    Mak, Sarah Siu Tze; Gopalakrishnan, Shyam; Carøe, Christian; Geng, Chunyu; Liu, Shanlin; Sinding, Mikkel Holger S.; Kuderna, Lukas, 1989-; Zhang, Wenwei; Fu, Shujin; Vieira, Filipe Garrett; Germonpré, Mietje; Bocherens, Hervé; Fedorov, Sergey E.; Petersen, Bent; Sicheritz-Ponten, Thomas; Marquès i Bonet, Tomàs, 1975-; Zhang, Guojie; Jiang, Hui; Gilbert, M Thomas (Oxford University Press, 2017)
    Ancient DNA research has been revolutionized following development of next-generation sequencing platforms. Although a number of such platforms have been applied to ancient DNA samples, the Illumina series are the dominant ...
  • Genomic legacy of the African cheetah, Acinonyx jubatus
    Dobrynin, Pavel; Liu, Shiping; Tamazian, Gaik; Xiong, Zijun; Yurchenko, Andrey A.; Krasheninnikova, Ksenia; Kliver, Sergey; Schmidt-Küntzel, Anne; Koepfli, Klaus-Peter; Johnson, Warren; Kuderna, Lukas, 1989-; García Pérez, Raquel, 1989-; de Manuel, Marc; Godinez, Ricardo; Komissarov, Aleksey; Makunin, Alexey; Brukhin, Vladimir; Qiu, Weilin; Zhou, Long; Li, Fang; Yi, Jian; Driscoll, Carlos; Antunes, Agostinho; Oleksyk, Taras K.; Eizirik, Eduardo; Perelman, Polina; Roelke, Melody; Wildt, David; Diekhans, Mark; Marquès i Bonet, Tomàs, 1975-; Marker, Laurie; Bhak, Jong; Wang, Jun; Zhang, Guojie; O'Brien, Stephen J. (BioMed Central, 2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Hi-C chromosome conformation capture sequencing of avian genomes using the BGISEQ-500 platform
    Sandoval Velasco, Marcela; Rodríguez, Juan Antonio; Pérez Estrada, Cynthia; Zhang, Guojie; Lieberman Aiden, Erez; Martí Renom, Marc A.; Gilbert, M Thomas; Smith, Oliver (Oxford University Press, 2020)
    Background: Hi-C experiments couple DNA-DNA proximity with next-generation sequencing to yield an unbiased description of genome-wide interactions. Previous methods describing Hi-C experiments have focused on the ...
  • Historic sampling of a vanishing beast: Population structure and diversity in the black rhinoceros
    Sánchez-Barreiro, Fátima; Cahsan, Binia de; Westbury, Michael V.; Sun, Xin; Margaryan, Ashot; Fontseré Alemany, Clàudia, 1992-; Bruford, Michael W.; Russo, Isa-Rita M.; Kalthoff, Daniela C.; Sicheritz-Ponten, Thomas; Petersen, Bent; Dalén, Love; Zhang, Guojie; Marquès i Bonet, Tomàs, 1975-; Gilbert, M Thomas; Moodley, Yoshan (Oxford University Press, 2023)
    The black rhinoceros (Diceros bicornis L.) is a critically endangered species historically distributed across sub-Saharan Africa. Hunting and habitat disturbance have diminished both its numbers and distribution since the ...
  • Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum)
    Sánchez-Barreiro, Fátima; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; Westbury, Michael V.; Manuel Montero, Marc de, 1991-; Margaryan, Ashot; Ciucani, Marta M.; Vieira, Filipe Garrett; Patramanis, Yannis; Kalthoff, Daniela C.; Timmons, Zena; Sicheritz-Ponten, Thomas; Dalén, Love; Ryder, Oliver A.; Zhang, Guojie; Marquès i Bonet, Tomàs, 1975-; Moodley, Yoshan; Gilbert, M Thomas (Wiley, 2021)
    Large vertebrates are extremely sensitive to anthropogenic pressure, and their populations are declining fast. The white rhinoceros (Ceratotherium simum) is a paradigmatic case: this African megaherbivore has suffered a ...
  • Initiation of the Primate Genome Project
    Wu, Dong-Dong; Qi, Xiao-Guang; Yu, Li; Li, Ming; Liu, Zhi-Jin; Yoder, Anne D.; Roos, Christian; Hayakawa, Takashi; Rogers, Jeffrey; Marquès i Bonet, Tomàs, 1975-; Su, Bing; Yao, Yong-Gang; Zhang, Ya-Ping; Zhang, Guojie (Editorial Office of Zoological Research, Kunming Institute of Zoology, Chinese Academy of Sciences, 2022)
  • Phylogenomic analyses of the genus drosophila reveals genomic signals of climate adaptation
    Li, Fang; Santpere Baró, Gabriel, 1981-; Zhang, Guojie (Wiley, 2022)
    Many Drosophila species differ widely in their distributions and climate niches, making them excellent subjects for evolutionary genomic studies. Here, we have developed a database of high-quality assemblies for 46 Drosophila ...
  • The Earth BioGenome Project 2020: Starting the clock
    Lewin, Harris S.; Marquès i Bonet, Tomàs, 1975-; Zhang, Guojie (National Academy of Sciences, 2022)
  • The Genomic Footprints of the Fall and Recovery of the Crested Ibis
    Feng, Shaohong; Fang, Qi; Barnett, Ross; Li, Cai; Han, Sojung; Kuhlwilm, Martin; Zhou, Long; Pan, Hailin; Deng, Yuan; Chen, Guangji; Gamauf, Anita; Woog, Friederike; Prys-Jones, Robert; Marquès i Bonet, Tomàs, 1975-; Gilbert, M Thomas; Zhang, Guojie (Elsevier, 2019)
    Human-induced environmental change and habitat fragmentation pose major threats to biodiversity and require active conservation efforts to mitigate their consequences. Genetic rescue through translocation and the introduction ...
  • Transcriptome innovations in primates revealed by single-molecule long-read sequencing
    Ferrández Peral, Luis, 1991-; Zhan, Xiaoyu; Zhan, Xiaoyu; Alvarez-Estape, Marina; Chiva, Cristina; Esteller Cucala, Paula; García Pérez, Raquel, 1989-; Julià, Eva; Lizano González, Esther, 1974-; Fornas Carreño, Oscar; Sabidó Aguadé, Eduard, 1981-; Li, Qiye; Marquès i Bonet, Tomàs, 1975-; Juan, David; Zhang, Guojie (Cold Spring Harbor Laboratory Press (CSHL Press), 2022)
    Transcriptomic diversity greatly contributes to the fundamentals of disease, lineage-specific biology, and environmental adaptation. However, much of the actual isoform repertoire contributing to shaping primate evolution ...

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