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Table 2 Status of whole genome sequencing and assembly of major aquaculture species in the United States, listed in the order of scaffold N50 sizes

From: Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research

Species Contig N50 [141] Scaffold N50 (Mb) Scaffolds % on chromosome Sequencing platform Total size (Mb) References
Catfish 77.2 7.73 9974 97.2 Illumina, PacBio 783 Liu et al. 2016 [5]
99.1 Zeng et al. 2017 [13]
Atlantic Salmon 57.6 2.97 843,055 75.4 Sanger, Illumina, PacBio 2970 Lien et al. 2016 [6]
Tilapia 29.3 2.80 - 70.9 Illumina, PacBio 928 Brawand et al. 2014 [8]
3090 - 86.9 1010 Conte et al. 2016, PC
Eastern oyster 1.59 2.50 849 In progress PacBio, Illumina 819 Wes Warren, PC
Rainbow trout 7.7 0.38   54.0 Illumina 1900 Brawand et al. 2014 [8] Palti and Gao, PC
13.9 1.72 82.0 2178
Zebrafish 25.0 1.55   96.5 Sanger, Illumina 1410 Howe et al. 2013 [157]
California yellowtail 139.3 1.49 4439 - Illumina 685 Andrew Severin, PC
PacBio
Pacific white shrimp (Litopenaeus vannamei) 57.1 0.66 6007 71.6 Illumina 1779 Jianhai Xiang, 2016, PC
PacBio
Pacific oyster 19.4 0.4 11,969 - Illumina 559 Zhang et al. 2012b [9]
Striped bass 20.9 0.03 35,010 - Illumina 585 Benjamin Reading, 2016, PC
PacBio
White bass (male/female) In process In process 56,818/57,533 - Illumina 644/643 Benjamin Reading, 2016, PC
Pacific abalone In process In process - - Illumina 2000 Severin, Purcell, Hyde, PC
Yellow perch (male/female) In process In process - - Illumina 1380/1240 Haping Wang, PC
  1. Zebrafish is included as a reference. PC: personal communications