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Hiseq 2500 ver 4

Manufactured by Illumina
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The HiSeq™ 2500 (ver. 4) is a high-throughput DNA sequencing system developed by Illumina. It is designed to deliver rapid and accurate sequencing results. The system utilizes sequencing-by-synthesis technology to generate DNA sequence data.

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HiSeq 2500 HiSeq 4

2 protocols using hiseq 2500 ver 4

1

Genome-wide SNP Generation from ddRAD and quaddRAD

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Genome‐wide single nucleotide polymorphisms (SNPs) were generated from sequencing double digested restriction‐associated (ddRAD, Peterson et al., 2012 (link)) and quadruple barcode ddRAD (quaddRAD) libraries (Franchini et al., 2017 (link)). Common minke whale and southern right whale libraries were generated from ddRAD libraries following Peterson et al. (2012 (link)). Fin whale libraries were generated from using the quaddRAD protocol as outlined by Franchini et al. (2017 (link)), which enables the removal of PCR clones. All libraries were prepared from genomic DNA digested with HindIII and MspI and insert sizes between 300 and 400 bp. Libraries were sequenced on an Illumina HiSeq™ 2500 (ver. 4) as paired‐end sequencing at 100 (ddRAD) or 125 (quaddRAD) cycles, with 10% PhiX spike‐in.
Cabrera A.A., Schall E., Bérubé M., Anderwald P., Bachmann L., Berrow S., Best P.B., Clapham P.J., Cunha H.A., Dalla Rosa L., Dias C., Findlay K.P., Haug T., Heide‐Jørgensen M.P., Hoelzel A.R., Kovacs K.M., Landry S., Larsen F., Lopes X.M., Lydersen C., Mattila D.K., Oosting T., Pace RM I.I.I., Papetti C., Paspati A., Pastene L.A., Prieto R., Ramp C., Robbins J., Sears R., Secchi E.R., Silva M.A., Simon M., Víkingsson G., Wiig Ø., Øien N, & Palsbøll P.J. (2022). Strong and lasting impacts of past global warming on baleen whales and their prey. Global Change Biology, 28(8), 2657-2677.
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2

Strand-specific RNA-seq of Daphnia

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Strand‐specific messenger RNA libraries were created for each total RNA sample of pooled daphnia (n = 5 individual neonates per replicate sample; five groups per treatment). Illumina HiSeq 2500, Ver 4, chemistry in high‐output mode to obtain 10 million reads per library, 50‐bp paired end (2 × 50), was employed.
Jankowski M.D., Fairbairn D.J., Baller J.A., Westerhoff B.M, & Schoenfuss H.L. (2022). Using the Daphnia magna Transcriptome to Distinguish Water Source: Wetland and Stormwater Case Studies. Environmental Toxicology and Chemistry, 41(9), 2107-2123.
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