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Article: Species-resolved sequencing of low-biomass or degraded microbiomes using 2bRAD-M

TitleSpecies-resolved sequencing of low-biomass or degraded microbiomes using 2bRAD-M
Authors
Issue Date2022
PublisherBioMed Central Ltd. The Journal's web site is located at http://www.genomebiology.com
Citation
Genome Biology, 2022, v. 23, article no. 36 How to Cite?
AbstractMicrobiome samples with low microbial biomass or severe DNA degradation remain challenging for amplicon-based or whole-metagenome sequencing approaches. Here, we introduce 2bRAD-M, a highly reduced and cost-effective strategy which only sequences ~ 1% of metagenome and can simultaneously produce species-level bacterial, archaeal, and fungal profiles. 2bRAD-M can accurately generate species-level taxonomic profiles for otherwise hard-to-sequence samples with merely 1 pg of total DNA, high host DNA contamination, or severely fragmented DNA from degraded samples. Tests of 2bRAD-M on various stool, skin, environmental, and clinical FFPE samples suggest a successful reconstruction of comprehensive, high-resolution microbial profiles.
Persistent Identifierhttp://hdl.handle.net/10722/310118
ISSN
2012 Impact Factor: 10.288
2023 SCImago Journal Rankings: 7.197
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorSun, Z-
dc.contributor.authorHuang, S-
dc.contributor.authorZhu, P-
dc.contributor.authorLam, T-
dc.contributor.authorZhao, H-
dc.contributor.authorLv, J-
dc.contributor.authorZhang, R-
dc.contributor.authorZhou, L-
dc.contributor.authorNiu, Q-
dc.contributor.authorWang, X-
dc.contributor.authorZhang, M-
dc.contributor.authorJing, G-
dc.contributor.authorBao, Z-
dc.contributor.authorLiu, J-
dc.contributor.authorWang, S-
dc.contributor.authorXu, J-
dc.date.accessioned2022-01-24T02:24:05Z-
dc.date.available2022-01-24T02:24:05Z-
dc.date.issued2022-
dc.identifier.citationGenome Biology, 2022, v. 23, article no. 36-
dc.identifier.issn1474-7596-
dc.identifier.urihttp://hdl.handle.net/10722/310118-
dc.description.abstractMicrobiome samples with low microbial biomass or severe DNA degradation remain challenging for amplicon-based or whole-metagenome sequencing approaches. Here, we introduce 2bRAD-M, a highly reduced and cost-effective strategy which only sequences ~ 1% of metagenome and can simultaneously produce species-level bacterial, archaeal, and fungal profiles. 2bRAD-M can accurately generate species-level taxonomic profiles for otherwise hard-to-sequence samples with merely 1 pg of total DNA, high host DNA contamination, or severely fragmented DNA from degraded samples. Tests of 2bRAD-M on various stool, skin, environmental, and clinical FFPE samples suggest a successful reconstruction of comprehensive, high-resolution microbial profiles.-
dc.languageeng-
dc.publisherBioMed Central Ltd. The Journal's web site is located at http://www.genomebiology.com-
dc.relation.ispartofGenome Biology-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.titleSpecies-resolved sequencing of low-biomass or degraded microbiomes using 2bRAD-M-
dc.typeArticle-
dc.identifier.emailHuang, S: shihuang@hku.hk-
dc.identifier.authorityHuang, S=rp02929-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1186/s13059-021-02576-9-
dc.identifier.pmid35078506-
dc.identifier.pmcidPMC8789378-
dc.identifier.scopuseid_2-s2.0-85123767329-
dc.identifier.hkuros331490-
dc.identifier.hkuros331869-
dc.identifier.volume23-
dc.identifier.spagearticle no. 36-
dc.identifier.epagearticle no. 36-
dc.identifier.isiWOS:000747026000002-
dc.publisher.placeUnited Kingdom-

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