Genomic Sequencing of Soft-shell and Green Sea Turtles

The soft–shell turtle was purchased from a local farmer in Japan, and the green sea turtle was provided by the Genome 10K Project (originally collected in Ocean Park, Hong Kong). Genomic DNA was extracted from the whole blood of a female individual in each species, and we constructed a total of 18 (for the soft–shell turtle) and 17 (for the green sea turtle) libraries consisting of short–insert (170–bp, 500–bp and 800–bp) and long–insert (2–kb, 5–kb, 10–kb, 20–kb and 40–kb) libraries. Sequencing was performed using the Illumina HiSeq 2000 system, and read error correction was performed for the short–insert libraries (on the basis of the K–mer frequency distribution curve; Supplementary Note). Data accession numbers are given in Supplementary Table 34.

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Wang Z., Pascual-Anaya J., Zadissa A., Li W., Niimura Y., Huang Z., Li C., White S., Xiong Z., Fang D., Wang B., Ming Y., Chen Y., Zheng Y., Kuraku S., Pignatelli M., Herrero J., Beal K., Nozawa M., Li Q., Wang J., Zhang H., Yu L., Shigenobu S., Wang J., Liu J., Flicek P., Searle S., Wang J., Kuratani S., Yin Y., Aken B., Zhang G, & Irie N. (2013). The draft genomes of soft–shell turtle and green sea turtle yield insights into the development and evolution of the turtle–specific body plan. Nature genetics, 45(6), 701-706.

Publication 2013

Blood Farmer Female Genomic Sea turtle Soft shell Turtle

Corresponding Organization : China National GeneBank

Other organizations : BGI Group (China), Wellcome Sanger Institute, Tokyo Medical and Dental University, European Bioinformatics Institute, Wellcome Trust, National Institute for Basic Biology, University of Copenhagen

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Variable analysis

independent variables

The soft–shell turtle was purchased from a local farmer in Japan
The green sea turtle was provided by the Genome 10K Project (originally collected in Ocean Park, Hong Kong)

dependent variables

Genomic DNA was extracted from the whole blood of a female individual in each species
A total of 18 (for the soft–shell turtle) and 17 (for the green sea turtle) libraries consisting of short–insert (170–bp, 500–bp and 800–bp) and long–insert (2–kb, 5–kb, 10–kb, 20–kb and 40–kb) libraries were constructed
Sequencing was performed using the Illumina HiSeq 2000 system
Read error correction was performed for the short–insert libraries (on the basis of the K–mer frequency distribution curve)

control variables

The whole blood of a female individual in each species was used for genomic DNA extraction

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