indoor metagenome (ID 376580) - BioProject

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Accession: PRJNA376580 ID: 376580

indoor metagenome

Metagenomes from hospital (NICU) surfaces and sinks

This data was generated to recover genomes from hospital (NICU) surfaces and sinks.

Accession	PRJNA376580
Data Type	Genome sequencing and assembly
Scope	Environment
Organism	indoor metagenome[Taxonomy ID: 1256227] unclassified sequences; metagenomes; ecological metagenomes; indoor metagenome
Publications (total 3) Less...	Olm MR et al., "Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital rooms.", Microbiome, 2019 Feb 15;7(1):26 More... Olm MR et al., "Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital rooms.", Microbiome, 2019 Feb 15;7(1):26 Brooks B et al., "Strain-resolved analysis of hospital rooms and infants reveals overlap between the human and room microbiome.", Nat Commun, 2017 Nov 27;8(1):1814 Bhardwaj A et al., "In situ click chemistry generation of cyclooxygenase-2 inhibitors.", Nat Commun, 2017 Feb 23;8(1):1 Less...
Submission	Registration date: 18-Jun-2018 Banfield Lab
Related Resources	Banfield Lab site
Relevance	Medical

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (total)	45366
WGS master	119
SRA Experiments	39
Protein Sequences	439662
Publications
PubMed	3
PMC	3
Other datasets
BioSample	2981
Assembly	119

Assembly details:

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Assembly level

Number of Assemblies

Scaffold

Contig

Total

27
92
119

Assembly	WGS	BioSample	Isolate	Taxonomy
GCA_003248855.1	QFPE00000000	SAMN07426552	S2_005_003_R3_52	Acidovorax sp.
GCA_003240765.1	QFNG00000000	SAMN07426609	S2_018_000_R3_109	Acinetobacter johnsonii
GCA_003241525.1	QFQJ00000000	SAMN07426520	S2_003_000_R3_20	Acinetobacter johnsonii
GCA_003248375.1	QFNJ00000000	SAMN07426605	S2_018_000_R2_105	Acinetobacter sp.
GCA_003248585.1	QFPC00000000	SAMN07426554	S2_006_000_R1_54	Actinomyces sp.
GCA_003243215.1	QFQK00000000	SAMN07426519	S2_003_000_R3_19	Aeromonas media
GCA_003241215.1	QFOL00000000	SAMN07426573	S2_009_000_R2_73	Agrobacterium fabrum
GCA_003241355.1	QFPL00000000	SAMN07426545	S2_005_003_R2_45	Aliarcobacter butzleri
GCA_003241075.1	QFOE00000000	SAMN07426580	S2_012_000_R2_80	Aliarcobacter butzleri
GCA_003241485.1	QFQD00000000	SAMN07426527	S2_005_001_R2_27	Ancylobacter novellus
GCA_003241695.1	QFPN00000000	SAMN07426543	S2_005_003_R2_43	Ancylobacter novellus
GCA_003243425.1	QFQP00000000	SAMN07426514	S2_003_000_R2_14	Archangium gephyra
GCA_003248635.1	QFPH00000000	SAMN07426549	S2_005_003_R3_49	Arsenicicoccus sp.
GCA_003243265.1	QFQN00000000	SAMN07426516	S2_003_000_R2_16	Azospira oryzae
GCA_003241545.1	QFON00000000	SAMN07426571	S2_009_000_R2_71	Azospira oryzae
GCA_003241205.1	QFOK00000000	SAMN07426574	S2_009_000_R2_74	Azospira oryzae
GCA_003243305.1	QFQT00000000	SAMN07426510	S2_003_000_R2_10	Azospirillum brasilense
GCA_003241095.1	QFOF00000000	SAMN07426579	S2_012_000_R2_79	Azospirillum brasilense
GCA_003241645.1	QFOX00000000	SAMN07426560	S2_006_000_R2_60	Azospirillum brasilense
GCA_005768725.1	VAFM00000000	SAMN07426606	S2_018_000_R2_106	Blastochloris viridis
GCA_003241005.1	QFNX00000000	SAMN07426589	S2_012_000_R3_89	Brachybacterium faecium
GCA_005768645.1	VAFH00000000	SAMN07426521	S2_003_000_R3_21	Bradyrhizobium icense
GCA_003248925.1	QFQA00000000	SAMN07426530	S2_005_002_R2_30	Brevundimonas sp.
GCA_003248965.1	QFQU00000000	SAMN07426509	S2_003_000_R2_9	Brevundimonas sp.
GCA_003248455.1	QFNM00000000	SAMN07426602	S2_018_000_R2_102	Brevundimonas sp.
GCA_003243465.1	QFQZ00000000	SAMN07426504	S2_003_000_R2_4	Caulobacter segnis
GCA_003243455.1	QFQS00000000	SAMN07426511	S2_003_000_R2_11	Cereibacter sphaeroides
GCA_003248805.1	QFQY00000000	SAMN07426505	S2_003_000_R2_5	Chelatococcus sp.
GCA_003248465.1	QFNO00000000	SAMN07426600	S2_018_000_R2_100	Chryseobacterium sp.
GCA_003248755.1	QFQW00000000	SAMN07426507	S2_003_000_R2_7	Chryseobacterium sp.
GCA_003243445.1	QFQQ00000000	SAMN07426513	S2_003_000_R2_13	Citrobacter freundii
GCA_003248785.1	QFOP00000000	SAMN07426569	S2_006_000_R3_69	Citromicrobium sp.
GCA_003248395.1	QFNA00000000	SAMN07426615	S2_018_000_R3_115	Citromicrobium sp.
GCA_003243515.1	QFRA00000000	SAMN07426503	S2_003_000_R1_3	Corynebacterium kroppenstedtii
GCA_003241755.1	QFPU00000000	SAMN07426536	S2_005_003_R1_36	Corynebacterium propinquum
GCA_003240965.1	QFNY00000000	SAMN07426587	S2_012_000_R3_87	Corynebacterium urealyticum
GCA_003243365.1	QFPZ00000000	SAMN07426531	S2_005_002_R2_31	Cutibacterium acnes
GCA_005768695.1	VAFI00000000	SAMN07426558	S2_006_000_R1_58	Cutibacterium acnes
GCA_003241135.1	QFOG00000000	SAMN07426578	S2_012_000_R1_78	Cutibacterium granulosum
GCA_003241045.1	QFOC00000000	SAMN07426582	S2_012_000_R2_82	Delftia acidovorans
GCA_003240845.1	QFNS00000000	SAMN07426596	S2_018_000_R1_96	Dermacoccus nishinomiyaensis
GCA_003243545.1	QFRB00000000	SAMN07426502	S2_003_000_R1_2	Ectopseudomonas oleovorans
GCA_003241745.1	QFPT00000000	SAMN07426537	S2_005_003_R2_37	Ectopseudomonas oleovorans
GCA_003241655.1	QFPA00000000	SAMN07426556	S2_006_000_R1_56	Ectopseudomonas oleovorans
GCA_003243165.1	QFQC00000000	SAMN07426528	S2_005_001_R3_28	Escherichia coli
GCA_003241515.1	QFQE00000000	SAMN07426526	S2_005_001_R2_26	Flavobacterium johnsoniae
GCA_004799385.1	SSMF00000000	SAMN07426566	S2_006_000_R2_66	Flavobacterium johnsoniae
GCA_003243255.1	QFQM00000000	SAMN07426517	S2_003_000_R2_17	Flavobacterium psychrophilum
GCA_003248485.1	QFNR00000000	SAMN07426597	S2_018_000_R1_97	Francisella sp.
GCA_003240955.1	QFNU00000000	SAMN07426593	S2_012_000_R3_93	Gardnerella vaginalis
GCA_003240925.1	QFNV00000000	SAMN07426592	S2_012_000_R3_92	Gardnerella vaginalis
GCA_005768775.1	VAFN00000000	SAMN07426617	S2_018_000_R3_117	Gemella sp.
GCA_003248405.1	QFNH00000000	SAMN07426608	S2_018_000_R3_108	Gordonia sp. (in: high G+C Gram-positive bacteria)
GCA_003240835.1	QFNQ00000000	SAMN07426598	S2_018_000_R1_98	Haemophilus parainfluenzae
GCA_003240705.1	QFND00000000	SAMN07426612	S2_018_000_R3_112	Kocuria palustris
GCA_003240995.1	QFNW00000000	SAMN07426591	S2_012_000_R3_91	Kocuria rhizophila
GCA_003241315.1	QFOZ00000000	SAMN07426557	S2_006_000_R1_57	Lawsonella clevelandensis
GCA_003243275.1	QFQR00000000	SAMN07426512	S2_003_000_R2_12	Leifsonia xyli
GCA_003240615.1	QFMY00000000	SAMN07426618	S2_018_000_R3_118	Leifsonia xyli
GCA_003240775.1	QFNI00000000	SAMN07426607	S2_018_000_R3_107	Mesorhizobium amorphae
GCA_003241555.1	QFOQ00000000	SAMN07426568	S2_006_000_R2_68	Methylorubrum populi
GCA_003241475.1	QFQB00000000	SAMN07426529	S2_005_002_R2_29	Micavibrio aeruginosavorus
GCA_003240795.1	QFNK00000000	SAMN07426604	S2_018_000_R2_104	Micavibrio aeruginosavorus
GCA_003241285.1	QFOT00000000	SAMN07426564	S2_006_000_R2_64	Micavibrio aeruginosavorus
GCA_003248835.1	QFPB00000000	SAMN07426555	S2_006_000_R1_55	Microbacterium sp.
GCA_003248845.1	QFPD00000000	SAMN07426553	S2_006_000_R1_53	Microbacterium sp.
GCA_003248605.1	QFPF00000000	SAMN07426551	S2_005_003_R3_51	Microbacterium sp.
GCA_003248655.1	QFPM00000000	SAMN07426544	S2_005_003_R2_44	Microbacterium sp.
GCA_003243185.1	QFQH00000000	SAMN07426523	S2_005_001_R1_23	Micrococcus luteus
GCA_003241455.1	QFPX00000000	SAMN07426533	S2_005_002_R2_33	Novosphingobium pentaromativorans
GCA_003243335.1	QFRC00000000	SAMN07426501	S2_003_000_R1_1	Paraburkholderia fungorum
GCA_005768755.1	VAFL00000000	SAMN07426594	S2_012_000_R3_94	Paracoccus denitrificans
GCA_003240635.1	QFMZ00000000	SAMN07426616	S2_018_000_R3_116	Paracoccus denitrificans
GCA_003240735.1	QFNE00000000	SAMN07426611	S2_018_000_R3_111	Paracoccus denitrificans
GCA_003240655.1	QFNB00000000	SAMN07426614	S2_018_000_R3_114	Pelagerythrobacter marensis
GCA_003243355.1	QFPI00000000	SAMN07426548	S2_005_003_R2_48	Phenylobacterium zucineum
GCA_003241595.1	QFOU00000000	SAMN07426563	S2_006_000_R2_63	Pseudomonas fluorescens
GCA_003241145.1	QFOH00000000	SAMN07426577	S2_009_000_R2_77	Pseudomonas kuykendallii
GCA_003240885.1	QFNP00000000	SAMN07426599	S2_018_000_R2_99	Pseudomonas protegens
GCA_003241405.1	QFPS00000000	SAMN07426538	S2_005_003_R2_38	Pseudomonas putida
GCA_003241175.1	QFOI00000000	SAMN07426576	S2_009_000_R2_76	Pseudopedobacter saltans
GCA_003241185.1	QFOJ00000000	SAMN07426575	S2_009_000_R2_75	Pseudoxanthomonas spadix
GCA_003240695.1	QFNC00000000	SAMN07426613	S2_018_000_R3_113	Pseudoxanthomonas suwonensis
GCA_003248675.1	QFQG00000000	SAMN07426524	S2_005_001_R1_24	Rhizobium sp.
GCA_003241385.1	QFPO00000000	SAMN07426542	S2_005_003_R2_42	Rhodanobacter denitrificans
GCA_003241785.1	QFPW00000000	SAMN07426534	S2_005_002_R2_34	Rhodovulum sulfidophilum
GCA_003241055.1	QFOD00000000	SAMN07426581	S2_012_000_R2_81	Roseateles depolymerans
GCA_004799365.1	SSME00000000	SAMN07426586	S2_012_000_R3_86	Rothia mucilaginosa
GCA_003241435.1	QFPV00000000	SAMN07426535	S2_005_003_R1_35	Serratia marcescens
GCA_003241225.1	QFOM00000000	SAMN07426572	S2_009_000_R2_72	Shewanella oneidensis
GCA_003248775.1	QFQX00000000	SAMN07426506	S2_003_000_R2_6	Shinella sp.
GCA_003248545.1	QFOR00000000	SAMN07426567	S2_006_000_R2_67	Shinella sp.
GCA_003248645.1	QFPY00000000	SAMN07426532	S2_005_002_R2_32	Sphingobium sp.
GCA_003248695.1	QFQL00000000	SAMN07426518	S2_003_000_R3_18	Sphingobium sp.
GCA_003248935.1	QFQF00000000	SAMN07426525	S2_005_001_R2_25	Sphingobium sp.
GCA_003248505.1	QFOA00000000	SAMN07426584	S2_012_000_R2_84	Sphingobium sp.
GCA_003241025.1	QFNZ00000000	SAMN07426585	S2_012_000_R2_85	Sphingomonas hengshuiensis
GCA_003240755.1	QFNF00000000	SAMN07426610	S2_018_000_R3_110	Sphingomonas hengshuiensis
GCA_003240855.1	QFNN00000000	SAMN07426601	S2_018_000_R2_101	Sphingomonas sanxanigenens
GCA_003248515.1	QFOB00000000	SAMN07426583	S2_012_000_R2_83	Sphingomonas sp.
GCA_003248385.1	QFNL00000000	SAMN07426603	S2_018_000_R2_103	Sphingomonas sp.
GCA_003248735.1	QFQV00000000	SAMN07426508	S2_003_000_R2_8	Sphingomonas sp.
GCA_003248865.1	QFPK00000000	SAMN07426546	S2_005_003_R2_46	Sphingomonas sp.
GCA_003240625.1	QFMX00000000	SAMN07426619	S2_018_000_R3_119	Sphingomonas taxi
GCA_003243195.1	QFQI00000000	SAMN07426522	S2_005_001_R1_22	Sphingomonas taxi
GCA_003241685.1	QFPJ00000000	SAMN07426547	S2_005_003_R2_47	Sphingopyxis macrogoltabida
GCA_003241305.1	QFOY00000000	SAMN07426559	S2_006_000_R1_59	Staphylococcus capitis
GCA_003241345.1	QFPG00000000	SAMN07426550	S2_005_003_R3_50	Staphylococcus epidermidis
GCA_005768675.1	VAFJ00000000	SAMN07426588	S2_012_000_R3_88	Staphylococcus hominis
GCA_003241705.1	QFPQ00000000	SAMN07426540	S2_005_003_R2_40	Stenotrophomonas acidaminiphila
GCA_003241275.1	QFOO00000000	SAMN07426570	S2_009_000_R1_70	Stenotrophomonas maltophilia
GCA_003248565.1	QFOV00000000	SAMN07426562	S2_006_000_R2_62	Stenotrophomonas sp.
GCA_003240915.1	QFNT00000000	SAMN07426595	S2_012_000_R3_95	Streptococcus pyogenes
GCA_005768745.1	VAFK00000000	SAMN07426590	S2_012_000_R3_90	Streptococcus thermophilus
GCA_003243385.1	QFQO00000000	SAMN07426515	S2_003_000_R2_15	Stutzerimonas stutzeri
GCA_003248915.1	QFPR00000000	SAMN07426539	S2_005_003_R2_39	Thauera sp.
GCA_003241585.1	QFOS00000000	SAMN07426565	S2_006_000_R2_65	Variovorax paradoxus
GCA_003241635.1	QFOW00000000	SAMN07426561	S2_006_000_R2_61	Variovorax paradoxus
GCA_003243375.1	QFPP00000000	SAMN07426541	S2_005_003_R2_41	Variovorax paradoxus

SRA Data Details

Parameter	Value
Data volume, Gbases	465
Data volume, Tbytes	0.24

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indoor metagenome

Metagenomes from hospital (NICU) surfaces and sinks

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