PRINCIPLE INVESTIGATORS

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Shanlin Liu, Ph.D.

Associate Professor

Department of Entomology, College of Plant Protection

China Agricultural University, Beijing, China

ORCiD: 0000-0001-8118-8313

Email: shanlin.liu@cau.edu.cn

 

WORK EXPERIENCE

 
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China Agricultural University

2021-

Associate Professor

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China Agricultural University

2019-2021

Post Doctoral Researcher

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BGI-Shenzhen

2010-2019

Research Scientist, Bioinformatician

EDITORIAL ASSOCIATION

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Mitochondrial DNA Part B

2020-

Editorial Board

Referee:

Methods in Ecology & Evolution, Molecular Ecology Resource, GigaScience, BMC Genomics, Biological Conservation, Plos One

 

EDUCATION

 

University of Copenhagen, Denmark

National History Museum

2015.9-2018.9

Ph.D.

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Hunan Normal University, China

Department of Animal Science, School of Life Sciences

2007.9-2010.6

Ms.

Hunan Normal University, China

Department of Animal Science, School of Life Sciences

2003.9-2007.6

Bs.

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SELECTED PUBLICATIONS

Evolution and Ecology:

 

  1. Valk, Tom van der, Patrícia Pečnerová, David Díez-del-Molino, Anders Bergström, Jonas Oppenheimer, Stefanie Hartmann, Georgios Xenikoudakis, et al. 2021. “Million-Year-Old DNA Sheds Light on the Genomic History of Mammoths.” Nature 591 (7849): 265–69. 

  2. Chentao Yang, Yuxuan Zheng, Shangjin Tan, Guanliang Meng, Wei Rao, Caiqing Yang, David G Bourne, ……, and Shanlin Liu*. 2020. “Efficient COI Barcoding Using High Throughput Single-End 400 Bp Sequencing.” BMC Genomics 21 (1): 862. 

  3. Nolen, Zachary J., Burcin Yildirim, Iker Irisarri, Shanlin Liu, Clara Groot Crego, Daniel Buchvaldt Amby, Frieder Mayer, M. Thomas P. Gilbert, and Ricardo J. Pereira. 2020. “Historical Isolation Facilitates Species Radiation by Sexual Selection: Insights from Chorthippus Grasshoppers.” Molecular Ecology, no. October: 4985–5002. 

  4. Yongkun Ji, Xingan Li, Ting Ji, Junbo Tang, Lifei Qiu, Jiahui Hu, Jiangxing Dong, et al. 2020. “Gene Reuse Facilitates Rapid Radiation and Independent Adaptation to Diverse Habitats in the Asian Honeybee.” Science Advances 6 (51). 

  5. Ashot Margaryan, Mikkel-holger S Sinding, Shanlin Liu, Filipe Garrett Vieira, Yvonne L Chan, Senthilvel Nathan, Yoshan Moodley, Michael Bruford, and M Thomas P Gilbert. 2020. “Recent Mitochondrial Lineage Extinction in the Critically Endangered Javan Rhinoceros.” Zoological Journal of the Linnean Society, March, 1–12. 

  6. Yuguang Zhang, Yuhong Zhong, Yanyun Hong, Yadong Xue, Diqiang Li, Chengran Zhou, and Shanlin Liu*. 2019. RAD-Seq data advance captive-based conservation of wild Bactrian camels (Camelus ferus). Conservation Genetics 20: 817-824.

  7. Enrico Cappellini, Frido Welker, Luca Pandolfi, Jazmín Ramos-Madrigal, Diana Samodova, Patrick L Rüther, Anna K Fotakis, et al. 2019. “Early Pleistocene Enamel Proteome from Dmanisi Resolves Stephanorhinus Phylogeny.” Nature 574 (7776): 103–7. 

  8. Shanlin Liu#, Chentao Yang#, Chengran Zhou#, and Xin Zhou*. 2017. Filling reference gaps via assembling DNA barcodes using high-throughput sequencing – moving toward barcoding the world. GigaScience 6(12): 1-8.

  9. Fatima Mitterboeck#, Shanlin Liu#, Sarah Adamowicz, Jinzhong Fu, Rui Zhang, Wenhui Song, Karen Meusemann, and Xin Zhou*. 2017. Positive and relaxed selection associated with flight evolution and loss in insect transcriptomes. GigaScience 6(10): 1-14.

  10. Shanlin Liu, Xin Wang, Lin Xie, Meihua Tan, Zhenyu Li, Xu Su, Hao Zhang, et al. 2016. Mitochondrial capture enriches mito-DNA 100 fold, enabling PCR-free mitogenomics biodiversity analysis. Molecular Ecology Resources16: 470-479

  11. Bernhard Misof*, Shanlin Liu, Karen Meusemann, Ralph Peters, Alexander Donath, Christoph Mayer, Paul. B. Frandsen, et al. 2014. Phylogenomics resolves the timing and pattern of insect evolution. Science 346 (6210):

 

Bioinformatics:

 

  1. Dandan Lang#, Shilai Zhang#, Pingping Ren, Fan Liang, Zongyi Sun, Guanliang Meng, Yuntao Tan, ……. and Shanlin Liu*. 2020. “Comparison of the Two Up-to-Date Sequencing Technologies for Genome Assembly: HiFi Reads of Pacific Biosciences Sequel II System and Ultralong Reads of Oxford Nanopore.” GigaScience 9 (12): 1–7.

  2. Jiang Hu, Junpeng Fan, Zongyi Sun, and Shanlin Liu*. 2019. NextPolish: a fast and efficient genome polishing tool for long read assembly. Bioinformatics 36(7): 2253-2255.

  3. Guanliang Meng, Yiyuan Li, Chentao Yang and Shanlin Liu*. 2019. MitoZ: A toolkit for animal mitochondrial genome assembly, annotation and visualization. Nucleic Acids Research 47(11): e63

  4. Yinlong Xie#, Gengxiong Wu#, Jingbo Tang#, Ruibang Luo, Jordan Patterson, Shanlin Liu, Weihua Huang, et al. 2014. SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads. Bioinformatics 30(12): 1660-1666.

  5. Shanlin Liu, Yiyuan Li, Jianliang Lu, Xu Su, Min Tang, Rui Zhang, Lili Zhou, et al. 2013. SOAPBarcode: revealing arthropod biodiversity through assembly of Illumina shotgun sequences of PCR amplicons. Methods in Ecology and Evolution 4: 1142-1150.