NextSeq of Ambystoma mavortium skin microbiome - SRA

SRX15493783: NextSeq of Ambystoma mavortium skin microbiome
1 ILLUMINA (NextSeq 550) run: 186.7M spots, 56.4G bases, 23.3Gb downloads

Design: Two mock community samples were added to the library. Cross-contamination oligos and synthetic gene sequences were added to each sample, and samples were normalized. PCR was used to amplify the 16S rRNA V4 region and ITS1 region and add unique dual index combinations to each sample for bacterial and fungal metabarcoding, respectively. Magnetic bead cleanup was performed following PCR, and amplicon product was pooled. Each sample received two PCR replicates.

Submitted by: Utah State University

Study: Western tiger salamander skin microbiome

PRJNA843333 • SRP377524 • All experiments • All runs

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Amphibian skin microbiota serve as the first line of defense against cutaneous diseases. This project investigates spatiotemporal and ontogenetic variation of bacterial and fungal communities on the skin of the western tiger salamander (Ambystoma mavortium). Additionally, this study identifies differentially abundant microbes between salamander skin and the environment, predicts the antifungal function of skin bacterial communities, and observes whether predicted antifungal function is correlated with amphibian chytrid fungus.

Sample: Salamander skin metagenome

SAMN28728549 • SRS13208891 • All experiments • All runs

Organism: skin metagenome

Library:

Name: B

Instrument: NextSeq 550

Strategy: AMPLICON

Source: METAGENOMIC

Selection: PCR

Layout: PAIRED

Runs: 1 run, 186.7M spots, 56.4G bases, 23.3Gb

Run	# of Spots	# of Bases	Size	Published
SRR19440602	186,714,509	56.4G	23.3Gb	2022-05-29

ID:: 22074441

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