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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