Fregata magnificens_lociPCR_female_blood_36 - SRA

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SRX13237734: Fregata magnificens_lociPCR_female_blood_36
1 ILLUMINA (NextSeq 500) run: 1.1M spots, 168.8M bases, 59.7Mb downloads

Design: DNA samples were standardized to 10 ng/ul. We amplified the autosomal, Z-linked and W-linked loci in the same PCR reaction using the Phusion Flash High Fidelity from Thermo Fisher Scientific (Cat. No. F548L). PCR products were purified using Agencourt AMPure XP (Cat. No. A63882). PCR products were multiplexed and sequenced in a NextSeq 500 Illumina machine (paired-end, 75 nucleotides long) at UNAM. The quality of the reads was verified using FastQC, and the remaining adaptors and low-quality bases were removed with Trimmomatic (v.036. Reads were aligned using bowtie2 (v. 2.3.4.1) against the genome sequence of the Magnificent Frigatebird or the transcriptome assemblies of the Blue-footed Booby. We used samtools to extract the reads that mapped uniquely to the expected loci.

Submitted by: Center for Genome Sciences - UNAM

Study: Sula nebouxii raw RNAseq reads from blood, Sula nebouxii raw reads from the loci-specific PCR method (blood), and Fregata magnificens raw reads from the loci-specific PCR method (blood).

PRJNA764264 • SRP338383 • All experiments • All runs

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For RNAseq: We purified RNA from seven females and two males using the RNAeasy QIAGEN kit. We generated strand-specific RNA-seq libraries, using the Illumina TruSeq Stranded mRNA Library protocol. Each library was sequenced on Illumina HiSeq 2500 platform (101 nucleotides, paired-end). For the loci-specific PCR method: DNA samples were standardized to 10 ng/ul. We amplified the autosomal, Z-linked, and W-linked loci in the same PCR reaction using the Phusion Flash High Fidelity from Thermo Fisher Scientific (Cat. No. F548L). PCR products were purified using Agencourt AMPure XP (Cat. No. A63882). PCR products were multiplexed and sequenced in a NextSeq 500 Illumina machine (paired-end, 75 nucleotides long) at UNAM.

Sample:

SAMN23457172 • SRS11162252 • All experiments • All runs

Organism: Fregata magnificens

Library:

Name: female.fregata.DC39_S25

Instrument: NextSeq 500

Strategy: AMPLICON

Source: GENOMIC

Selection: PCR

Layout: PAIRED

Runs: 1 run, 1.1M spots, 168.8M bases, 59.7Mb

Run	# of Spots	# of Bases	Size	Published
SRR17047973	1,110,418	168.8M	59.7Mb	2021-11-26

ID:: 18103414

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