Resources
Are you are interested in getting a start with GBS? Maybe you are looking for examples of how GBS has been used to answer similar questions. Perhaps the paper or grant you are writing could be strengthened with a few additional targeted citations. Below you will find a selection of resources by category to assist you. This list is not comprehensive and we make no claim as to the applicability of any particular one to your research. To find more of the thousands of publications that cite the original Elshire et al 2011 paper go to the Google scholar citation search.
Agriculture (Plant)
- Cericola Fabio, Lenk Ingo, Fè Dario, Byrne Stephen, Jensen Christian S., Pedersen Morten G., Asp Torben, Jensen Just, Janss Luc. “Optimized Use of Low-Depth Genotyping-by-Sequencing for Genomic Prediction Among Multi-Parental Family Pools and Single Plants in Perennial Ryegrass (Lolium perenne L.)” Frontiers in Plant Science, 2018 https://doi.org/10.3389/fpls.2018.00369
- Ibrahim S.Elbasyoni, A.J.Lorenz, M.Guttieri, K.Frels, P.S.Baenziger, J.Poland, E.Akhunove. “A comparison between genotyping-by-sequencing and array-based scoring of SNPs for genomic prediction accuracy in winter wheat.” Plant Science, 2017 https://doi.org/10.1016/j.plantsci.2018.02.019
- Deschamps, Stéphane, Victor Llaca, and Gregory D. May. “Genotyping-by-Sequencing in Plants.” Biology 1, no. 3 (2012): 460–483.
- Romay, Maria C., Mark J. Millard, Jeffrey C. Glaubitz, Jason A. Peiffer, Kelly L. Swarts, Terry M. Casstevens, Robert J. Elshire, et al. “Comprehensive Genotyping of the USA National Maize Inbred Seed Bank.” Genome Biol 14 (2013): R55.
- He, Jiangfeng, Xiaoqing Zhao, André Laroche, Zhen-Xiang Lu, HongKui Liu, and Ziqin Li. “Genotyping-by-Sequencing (GBS), an Ultimate Marker-Assisted Selection (MAS) Tool to Accelerate Plant Breeding.” Frontiers in Plant Science 5 (September 30, 2014). doi:10.3389/fpls.2014.00484.
- Peterson, Gregory W., Yibo Dong, Carolee Horbach, and Yong-Bi Fu. “Genotyping-By-Sequencing for Plant Genetic Diversity Analysis: A Lab Guide for SNP Genotyping.” Diversity 6, no. 4 (October 20, 2014): 665–80. doi:10.3390/d6040665.
Polyploid
Agriculture (Animal)
- Artur Gurgul, Anna Miksza-Cybulska, Tomasz Szmato?a, Igor Jasielczuk, Agata Piestrzy?ska-Kajtoch, Agnieszka Fornal, Ewelina Semik-Gurgul, and Monika Bugno-Poniewierska. “Genotyping-by-sequencing performance in selected livestock species.” Genomics, 2018 https://doi.org/10.1016/j.ygeno.2018.02.002
- Donato, Marcos De, Sunday O. Peters, Sharon E. Mitchell, Tanveer Hussain, and Ikhide G. Imumorin. “Genotyping-by-Sequencing (GBS): A Novel, Efficient and Cost-Effective Genotyping Method for Cattle Using Next-Generation Sequencing.” PLOS ONE 8, no. 5 (May 17, 2013): e62137. doi:10.1371/journal.pone.0062137.
Horticulture (Plant)
- Nunzio D’Agostino, Pasquale Tripodi. “NGS-Based Genotyping, High-Throughput Phenotyping and Genome-Wide Association Studies Laid the Foundations for Next-Generation Breeding in Horticultural Crops” Diversity, 2017 https://doi.org/10.3390/d9030038
- Aboozar Soorni, Reza Fatahi, David C. Haak, Seyed Alireza Salami, & Aureliano Bombarely. “Assessment of Genetic Diversity and Population Structure in Iranian Cannabis Germplasm ” Scientific Reports, 2017 DOI:10.1038/s41598-017-15816-5
- Daniela Vergara, Halie Baker, Kayla Clancy, Kyle G. Keepers, J. Paul Mendieta, Christopher S. Pauli, Silas B. Tittes, Kristin H. White & Nolan C. Kane. “Genetic and Genomic Tools for Cannabis sativa” Critical Reviews in Plant Sciences, 2016 DOI:10.1080/07352689.2016.1267496
- Nocker, Steve van, and Susan E. Gardiner. “Breeding Better Cultivars, Faster: Applications of New Technologies for the Rapid Deployment of Superior Horticultural Tree Crops.” Horticulture Research 1 (2014). http://www.nature.com/articles/hortres201422.
- Reddy, Umesh K., Padma Nimmakayala, Amnon Levi, Venkata Lakshmi Abburi, Thangasamy Saminathan, Yan R. Tomason, Gopinath Vajja, et al. “High-Resolution Genetic Map for Understanding the Effect of Genome-Wide Recombination Rate on Nucleotide Diversity in Watermelon.” G3: Genes| Genomes| Genetics, 2014, g3–114.
- Barba, Paola, Lance Cadle-Davidson, James Harriman, Jeffrey C. Glaubitz, Siraprapa Brooks, Katie Hyma, and Bruce Reisch. “Grapevine Powdery Mildew Resistance and Susceptibility Loci Identified on a High-Resolution SNP Map.” Theoretical and Applied Genetics 127, no. 1 (January 2014): 73–84. doi:10.1007/s00122-013-2202-x.
Aquaculture
- White SJ, Vadopalas B, Silliman K, Roberts SB. “Genotoype-by-sequencing of three geographically distinct populations of Olympia oysters, Ostrea lurida.” Scientific Data. 2017 https://doi.org/10.1038/sdata.2017.130
- Honggang Zhao, Chao Li, John S. Hargrove, Bryant R. Bowen, Wilawan Thongda, Dongdong Zhang ,Haitham Mohammed, Benjamin H. Beck, James D. Austin, Eric Peatman. “SNP marker panels for parentage assignment and traceability in the Florida bass (Micropterus floridanus).” Aquaculture, 2017 https://doi.org/10.1016/j.aquaculture.2017.11.014
Conservation
- Eric W Malone, Joshuah S Perkin, Brian M Leckie, Matthew A Kulp, Carla R Hurt, Donald M Walker. “Which species, how many, and from where: Integrating habitat suitability, population genomics, and abundance estimates into species reintroduction planning.” Global Change Biology, 2018 https://doi.org/10.1111/gcb.14126
- Narum, Shawn R., C. Alex Buerkle, John W. Davey, Michael R. Miller, and Paul A. Hohenlohe. “Genotyping-by-Sequencing in Ecological and Conservation Genomics.” Molecular Ecology 22, no. 11 (2013): 2841–2847.
Ecology
- Soraia Barbosa, Joana Paupério, Svetlana V Pavlova, Paulo C Alves, Jeremy B Searle. “The Microtus voles: resolving the phylogeny of one of the most speciose mammalian genera using genomics.” Molecular Phylogenetics and Evolution, 2018. https://doi.org/10.1016/j.ympev.2018.03.017
- S. E. Kingston, P. Martino, M. Melendy, F. A. Reed, and D. B. Carlon. “Linking genotype to phenotype in a changing ocean: inferring the genomic architecture of a blue mussel stress response with genome-wide association.” Journal of Evolutionary Biology, 2017 https://doi.org/10.5061/dryad.2d8b5
- Purcell, Jessica, Alan Brelsford, Yannick Wurm, Nicolas Perrin, and Michel Chapuisat. “Convergent Genetic Architecture Underlies Social Organization in Ants.” Current Biology, 2014. http://www.sciencedirect.com/science/article/pii/S0960982214012676.
- Taylor, Scott A., Thomas A. White, Wesley M. Hochachka, Valentina Ferretti, Robert L. Curry, and Irby Lovette. “Climate-Mediated Movement of an Avian Hybrid Zone.” Current Biology 24, no. 6 (2014): 671–676.
- Buckley, Thomas R, Matt Krosch, and Richard A B Leschen. “Evolution of New Zealand Insects: Summary and Prospectus for Future Research.” Austral Entomology 54, no. 1 (February 1, 2015): 1–27. doi:10.1111/aen.12116.
Bioprotection
Bioinformatics
Review
Genome Assembly
Pipelines
Utilities
- Herten, Koen, Matthew S. Hestand, Joris R. Vermeesch, and Jeroen KJ Van Houdt. “GBSX: A Toolkit for Experimental Design and Demultiplexing Genotyping by Sequencing Experiments.” BMC Bioinformatics 16 (2015): 73. doi:10.1186/s12859-015-0514-3.
https://github.com/GenomicsCoreLeuven/GBSX - Kevin Murray’s GBS Tools