TY - STD TI - Ming R, VanBuren R, Liu Y, Yang M, Han Y, Li LT, Zhang Q, Kim MJ, Schatz MC, Campbell M. Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn). Genome Biol. 2013;14(5):R41. ID - ref1 ER - TY - STD TI - Wang Y, Fan G, Liu Y, Sun F, Shi C, Liu X, Peng J, Chen W, Huang X, Cheng S, et al. The sacred lotus genome provides insights into the evolution of flowering plants. Plant J. 2013;76(4):557–67. ID - ref2 ER - TY - JOUR AU - Shen-Miller, J. PY - 2002 DA - 2002// TI - Sacred lotus, the long-living fruits of China Antique JO - Seed Sci Res VL - 12 UR - https://doi.org/10.1079/SSR2002112 DO - 10.1079/SSR2002112 ID - Shen-Miller2002 ER - TY - JOUR AU - Fu, J. AU - Xiang, Q. Y. AU - Zeng, X. B. AU - Yang, M. AU - Wang, Y. AU - Liu, Y. L. PY - 2011 DA - 2011// TI - Assessment of the Genetic Diversity and Population Structure of Lotus Cultivars Grown in China by Amplified Fragment Length Polymorphism JO - J Am Soc Hortic Sci VL - 136 ID - Fu2011 ER - TY - STD TI - Hu JH, Pan L, Liu HG, Wang SZ, Wu ZH, Ke WD, Ding Y. Comparative analysis of genetic diversity in sacred lotus (Nelumbo nucifera Gaertn.) using AFLP and SSR markers. Mol Biol Rep. 2012;39(4):3637–47. ID - ref5 ER - TY - JOUR AU - Guo, H. B. PY - 2009 DA - 2009// TI - Cultivation of lotus (Nelumbo nucifera Gaertn. ssp. nucifera) and its utilization in China JO - Genet Resour Crop Evol VL - 56 UR - https://doi.org/10.1007/s10722-008-9366-2 DO - 10.1007/s10722-008-9366-2 ID - Guo2009 ER - TY - JOUR AU - Ke, W. D. AU - Li, F. AU - Liu, Y. P. AU - Sun, B. PY - 2003 DA - 2003// TI - Advance on lotus germplasm resources and current breeding JO - J Changjiang Vegetables VL - 4 ID - Ke2003 ER - TY - JOUR AU - Liu, Y. M. AU - Wei, Y. AU - Li, F. AU - Huang, X. F. AU - Ke, W. D. PY - 2006 DA - 2006// TI - Evolvement and utilization of lotus root (Nelumbo nucifera Gaertn.) cultivars in Hubei province JO - Hubei Agricultural Sciences VL - 45 ID - Liu2006 ER - TY - JOUR AU - Yang, M. AU - Han, Y. N. AU - VanBuren, R. AU - Ming, R. AU - Xu, L. M. AU - Han, Y. P. AU - Liu, Y. L. PY - 2012 DA - 2012// TI - Genetic linkage maps for Asian and American lotus constructed using novel SSR markers derived from the genome of sequenced cultivar JO - BMC Genomics VL - 13 UR - https://doi.org/10.1186/1471-2164-13-653 DO - 10.1186/1471-2164-13-653 ID - Yang2012 ER - TY - JOUR AU - Zhang, Q. AU - Li, L. T. AU - VanBuren, R. AU - Liu, Y. L. AU - Yang, M. AU - Xu, L. M. AU - Bowers, J. E. AU - Zhong, C. H. AU - Han, Y. P. AU - Li, S. H. PY - 2014 DA - 2014// TI - Optimization of linkage mapping strategy and construction of a high-density American lotus linkage map JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-372 DO - 10.1186/1471-2164-15-372 ID - Zhang2014 ER - TY - JOUR AU - Li, R. Q. AU - Fan, W. AU - Tian, G. AU - Zhu, H. M. AU - He, L. AU - Cai, J. AU - Huang, Q. F. AU - Cai, Q. L. AU - Li, B. AU - Bai, Y. Q. PY - 2010 DA - 2010// TI - The sequence and de novo assembly of the giant panda genome JO - Nature VL - 463 UR - https://doi.org/10.1038/nature08696 DO - 10.1038/nature08696 ID - Li2010 ER - TY - JOUR AU - Huang, S. W. AU - Li, R. Q. AU - Zhang, Z. H. AU - Li, L. AU - Gu, X. F. AU - Fan, W. AU - Lucas, W. J. AU - Wang, X. W. AU - Xie, B. Y. AU - Ni, P. X. PY - 2009 DA - 2009// TI - The genome of the cucumber, Cucumis sativus L JO - Nat Genet VL - 41 UR - https://doi.org/10.1038/ng.475 DO - 10.1038/ng.475 ID - Huang2009 ER - TY - JOUR AU - Velasco, R. AU - Zharkikh, A. AU - Affourtit, J. AU - Dhingra, A. AU - Cestaro, A. AU - Kalyanaraman, A. AU - Fontana, P. AU - Bhatnagar, S. K. AU - Troggio, M. AU - Pruss, D. PY - 2010 DA - 2010// TI - The genome of the domesticated apple (Malus x domestica Borkh.) JO - Nat Genet VL - 42 UR - https://doi.org/10.1038/ng.654 DO - 10.1038/ng.654 ID - Velasco2010 ER - TY - JOUR AU - Davey, J. L. AU - Blaxter, M. W. PY - 2010 DA - 2010// TI - RADSeq: next-generation population genetics JO - Brief Funct Genomics VL - 9 UR - https://doi.org/10.1093/bfgp/elq031 DO - 10.1093/bfgp/elq031 ID - Davey2010 ER - TY - JOUR AU - Baird, N. A. AU - Etter, P. D. AU - Atwood, T. S. AU - Currey, M. C. AU - Shiver, A. L. AU - Lewis, Z. A. AU - Selker, E. U. AU - Cresko, W. A. AU - Johnson, E. A. PY - 2008 DA - 2008// TI - Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers JO - PLoS One VL - 3 UR - https://doi.org/10.1371/journal.pone.0003376 DO - 10.1371/journal.pone.0003376 ID - Baird2008 ER - TY - JOUR AU - Peterson, B. K. AU - Weber, J. N. AU - Kay, E. H. AU - Fisher, H. S. AU - Hoekstra, H. E. PY - 2012 DA - 2012// TI - Double digest RADseq: an inexpensive method for de novo SNP discovery and genotyping in model and non-model species JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0037135 DO - 10.1371/journal.pone.0037135 ID - Peterson2012 ER - TY - JOUR AU - Yang, M. AU - Han, Y. N. AU - Xu, L. M. AU - Zhao, J. R. AU - Liu, Y. L. PY - 2012 DA - 2012// TI - Comparative analysis of genetic diversity of lotus (Nelumbo) using SSR and SRAP markers JO - Sci Hortic VL - 142 UR - https://doi.org/10.1016/j.scienta.2012.05.021 DO - 10.1016/j.scienta.2012.05.021 ID - Yang2012 ER - TY - JOUR AU - Li, H. AU - Durbin, R. PY - 2009 DA - 2009// TI - Fast and accurate short read alignment with Burrows-Wheeler transform JO - Bioinformatics VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp324 DO - 10.1093/bioinformatics/btp324 ID - Li2009 ER - TY - JOUR AU - McKenna, A. AU - Hanna, M. AU - Banks, E. AU - Sivachenko, A. AU - Cibulskis, K. AU - Kernytsky, A. AU - Garimella, K. AU - Altshuler, D. AU - Gabriel, S. AU - Daly, M. PY - 2010 DA - 2010// TI - The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data JO - Genome Res VL - 20 UR - https://doi.org/10.1101/gr.107524.110 DO - 10.1101/gr.107524.110 ID - McKenna2010 ER - TY - JOUR AU - Ooijen, J. W. PY - 2011 DA - 2011// TI - Multipoint maximum likelihood mapping in a full-sib family of an outbreeding species JO - Genet Res (Camb) VL - 93 UR - https://doi.org/10.1017/S0016672311000279 DO - 10.1017/S0016672311000279 ID - Ooijen2011 ER - TY - JOUR AU - Singer, T. AU - Fan, Y. P. AU - Chang, H. S. AU - Zhu, T. AU - Hazen, S. P. AU - Briggs, S. P. PY - 2006 DA - 2006// TI - A high-resolution map of Arabidopsis recombinant inbred lines by whole-genome exon array hybridization JO - Plos Genetics VL - 2 UR - https://doi.org/10.1371/journal.pgen.0020144 DO - 10.1371/journal.pgen.0020144 ID - Singer2006 ER - TY - STD TI - McCouch SR, Teytelman L, Xu Y, Lobos KB, Clare K, Walton M, et al. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res. 2002;9(6):199–207. ID - ref22 ER - TY - STD TI - Barchi L, Lanteri S, Portis E, Acquadro A, Vale G, Toppino L, Fu B, Maghirang R, Li Z, Xing Y, et al. Identification of SNP and SSR markers in eggplant using RAD tag sequencing. BMC Genomics. 2011;12(1):93–8. ID - ref23 ER - TY - STD TI - Guo F, Yu HW, Tang Z, Jiang XL, Wang L, Wang X, et al. Construction of a SNP-based high-density genetic map for pummelo using RAD sequencing. Tree Genetics & Genomes. 2015;11(1):1–11. ID - ref24 ER - TY - JOUR AU - Gonen, S. AU - Lowe, N. R. AU - Cezard, T. AU - Gharbi, K. AU - Bishop, S. C. AU - Houston, R. D. PY - 2014 DA - 2014// TI - Linkage maps of the Atlantic salmon (Salmo salar) genome derived from RAD sequencing JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-166 DO - 10.1186/1471-2164-15-166 ID - Gonen2014 ER - TY - JOUR AU - Celton, J. M. AU - Christoffels, A. AU - Sargent, D. J. AU - Xu, X. M. AU - Rees, D. J. G. PY - 2010 DA - 2010// TI - Genome-wide SNP identification by high-throughput sequencing and selective mapping allows sequence assembly positioning using a framework genetic linkage map JO - BMC Biol VL - 8 UR - https://doi.org/10.1186/1741-7007-8-155 DO - 10.1186/1741-7007-8-155 ID - Celton2010 ER - TY - JOUR AU - Kai, W. AU - Nomura, K. AU - Fujiwara, A. AU - Nakamura, Y. AU - Yasuike, M. AU - Ojima, N. AU - Masaoka, T. AU - Ozaki, A. AU - Kazeto, Y. AU - Gen, K. PY - 2014 DA - 2014// TI - A ddRAD-based genetic map and its integration with the genome assembly of Japanese eel (Anguilla japonica) provides insights into genome evolution after the teleost-specific genome duplication JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-233 DO - 10.1186/1471-2164-15-233 ID - Kai2014 ER - TY - JOUR AU - Kikuchi, K. AU - Kai, W. PY - 2012 DA - 2012// TI - Integration of the genetic map and genome assembly of fugu (the tiger pufferfish) and its applications JO - Nippon Suisan Gakkaishi VL - 78 UR - https://doi.org/10.2331/suisan.78.269 DO - 10.2331/suisan.78.269 ID - Kikuchi2012 ER - TY - JOUR AU - Kundu, A. AU - Chakraborty, A. AU - Mandal, N. A. AU - Das, D. AU - Karmakar, P. G. AU - Singh, N. K. AU - Sarkar, D. PY - 2015 DA - 2015// TI - A restriction-site-associated DNA (RAD) linkage map, comparative genomics and identification of QTL for histological fibre content coincident with those for retted bast fibre yield and its major components in jute (Corchorus olitorius L., Malvaceae s. l.) JO - Mol Breed VL - 35 UR - https://doi.org/10.1007/s11032-015-0249-x DO - 10.1007/s11032-015-0249-x ID - Kundu2015 ER - TY - STD TI - Chutimanitsakun Y, Nipper RW, Cuesta-Marcos A, Cistue L, Corey A, Filichkina T, Filichkina T, Johnson EA, Hayes PM. Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley. BMC Genomics. 2011;12:4. ID - ref30 ER - TY - JOUR AU - Wu, K. AU - Liu, H. Y. AU - Yang, M. M. AU - Tao, Y. AU - Ma, H. H. AU - Wu, W. X. AU - Zuo, Y. AU - Zhao, Y. Z. PY - 2014 DA - 2014// TI - High-density genetic map construction and QTLs analysis of grain yield-related traits in Sesame (Sesamum indicum L.) based on RAD-Seq techonology JO - BMC Plant Biol VL - 14 UR - https://doi.org/10.1186/1471-2229-14-1 DO - 10.1186/1471-2229-14-1 ID - Wu2014 ER - TY - JOUR AU - Li, B. AU - Tian, L. AU - Zhang, J. Y. AU - Huang, L. AU - Han, F. X. AU - Yan, S. R. AU - Wang, L. Z. AU - Zheng, H. K. AU - Sun, J. M. PY - 2014 DA - 2014// TI - Construction of a high-density genetic map based on large-scale markers developed by specific length amplified fragment sequencing (SLAF-seq) and its application to QTL analysis for isoflavone content in Glycine max JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-1086 DO - 10.1186/1471-2164-15-1086 ID - Li2014 ER - TY - JOUR AU - Zhou, X. J. AU - Xia, Y. L. AU - Ren, X. P. AU - Chen, Y. L. AU - Huang, L. AU - Huang, S. M. AU - Liao, B. S. AU - Lei, Y. AU - Yan, L. Y. AU - Jiang, H. F. PY - 2014 DA - 2014// TI - Construction of a SNP-based genetic linkage map in cultivated peanut based on large scale marker development using next-generation double-digest restriction-site-associated DNA sequencing (ddRADseq) JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-351 DO - 10.1186/1471-2164-15-351 ID - Zhou2014 ER - TY - JOUR AU - Diao, Y. AU - She, C. W. AU - Hu, Z. L. PY - 2006 DA - 2006// TI - Karyotype Analysis for Zygotene Chromosome of Nelumbo nucifera JO - Amino Acids & Biotic Resources VL - 28 ID - Diao2006 ER - TY - JOUR AU - Kianian, S. F. AU - Quiros, C. F. PY - 1992 DA - 1992// TI - Generation of a Brassica oleracea composite RFLP map: linkage arrangements among various populations and evolutionary implications JO - Theor Appl Genet VL - 84 ID - Kianian1992 ER - TY - JOUR AU - Zhang, Q. AU - Ma, B. AU - Li, H. AU - Chang, Y. AU - Han, Y. AU - Li, J. AU - Wei, G. AU - Zhao, S. AU - Khan, M. A. AU - Zhou, Y. PY - 2012 DA - 2012// TI - Identification, characterization, and utilization of genome-wide simple sequence repeats to identify a QTL for acidity in apple JO - BMC Genomics VL - 13 UR - https://doi.org/10.1186/1471-2164-13-537 DO - 10.1186/1471-2164-13-537 ID - Zhang2012 ER - TY - JOUR AU - Lu, H. AU - Romero-Severson, J. AU - Bernardo, R. PY - 2002 DA - 2002// TI - Chromosomal regions associated with segregation distortion in maize JO - Theor Appl Genet VL - 105 UR - https://doi.org/10.1007/s00122-002-0970-9 DO - 10.1007/s00122-002-0970-9 ID - Lu2002 ER - TY - JOUR AU - Xu, Y. AU - Zhu, L. AU - Xiao, J. AU - Huang, N. AU - McCouch, S. R. PY - 1997 DA - 1997// TI - Chromosomal regions associated with segregation distortion of molecular markers in F2, backcross, doubled haploid, and recombinant inbred populations in rice (Oryza sativa L.) JO - Mol Gen Genet VL - 253 UR - https://doi.org/10.1007/s004380050355 DO - 10.1007/s004380050355 ID - Xu1997 ER - TY - JOUR AU - Wang, J. Y. AU - Guo, M. L. AU - Lin, W. X. PY - 2004 DA - 2004// TI - DNA preparation method for lotus (Nelumbo nucifera Gaertn.) containing high polysaccharide JO - Fujian Science and Technology of Rice and Wheat VL - 22 ID - Wang2004 ER - TY - JOUR AU - Patel, R. K. AU - Jain, M. PY - 2012 DA - 2012// TI - NGS QC Toolkit: a toolkit for quality control of next generation sequencing data JO - PLoS One VL - 7 UR - https://doi.org/10.1371/journal.pone.0030619 DO - 10.1371/journal.pone.0030619 ID - Patel2012 ER - TY - JOUR AU - Langmead, B. AU - Salzberg, S. L. PY - 2012 DA - 2012// TI - Fast gapped-read alignment with Bowtie 2 JO - Nat Methods VL - 9 UR - https://doi.org/10.1038/nmeth.1923 DO - 10.1038/nmeth.1923 ID - Langmead2012 ER -