Human gut metagenomic sample - colon model (ID 722408) - BioProject

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Accession: PRJNA722408 ID: 722408

Human gut metagenomic sample - colon model

Metagenomics data from a colon model experiment linking carbohydrate structure with function in the human gut microbiome using short and long sequencing data

Metagenomics dataset from short and long sequencing data to study the digestion of complex carbohydrates in a controlled model gut.

Accession	PRJNA722408
Data Type	Genome sequencing and assembly
Scope	Environment
Organism	human gut metagenome[Taxonomy ID: 408170] unclassified sequences; metagenomes; organismal metagenomes; human gut metagenome
Publications	Ravi A et al., "Hybrid metagenome assemblies link carbohydrate structure with function in the human gut microbiome.", Commun Biol, 2022 Sep 8;5(1):932 Published online: Ravi A et al., "Linking carbohydrate structure with function in the human gut microbiome using hybrid metagenome assemblies", name, 2021;
Submission	Registration date: 3-Oct-2022 Quadram Institute Bioscience
Relevance	Nutrition and Health

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (WGS master)	151
SRA Experiments	58
Publications
PubMed	1
PMC	1
Other datasets
BioSample	174
Assembly	151

Assembly details:

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Assembly level

Number of Assemblies

Contig

Total

151
151

Assembly	WGS	BioSample	Isolate	Taxonomy
GCA_025543075.1	JAHQFZ000000000	SAMN18871261	pstarch_METABAT__57	Acinetobacter sp.
GCA_025542755.1	JAHQGQ000000000	SAMN18871277	rmaize_METABAT__159	Adlercreutzia sp.
GCA_025543375.1	JAHQFL000000000	SAMN18871247	nmaize_METABAT__162	Adlercreutzia sp.
GCA_025543195.1	JAHQFV000000000	SAMN18871257	pstarch_METABAT__156	Adlercreutzia sp.
GCA_025542315.1	JAHQHO000000000	SAMN18871305	T0_METABAT__12	Adlercreutzia sp.
GCA_025541195.1	JAHQDF000000000	SAMN18871189	avicel__METABAT__158	Adlercreutzia sp.
GCA_025544055.1	JAHQEC000000000	SAMN18871212	hylon_METABAT__27	Adlercreutzia sp.
GCA_025543715.1	JAHQET000000000	SAMN18871229	inulin_METABAT__178	Adlercreutzia sp.
GCA_025542075.1	JAHQIA000000000	SAMN18871314	T0_METABAT__193	Agathobacter rectalis
GCA_025543355.1	JAHQFM000000000	SAMN18871248	nmaize_METABAT__25	Agathobaculum butyriciproducens
GCA_025542815.1	JAHQGN000000000	SAMN18871278	rmaize_METABAT__15	Agathobaculum butyriciproducens
GCA_025543155.1	JAHQFW000000000	SAMN18871258	pstarch_METABAT__173	Agathobaculum butyriciproducens
GCA_025541235.1	JAHQDD000000000	SAMN18871187	avicel_METABAT__13	Agathobaculum butyriciproducens
GCA_025543875.1	JAHQEL000000000	SAMN18871221	inulin_METABAT__101	Agathobaculum butyriciproducens
GCA_025544135.1	JAHQDY000000000	SAMN18871208	hylon_METABAT__208	Agathobaculum butyriciproducens
GCA_025543035.1	JAHQGD000000000	SAMN18871265	rmaize_MAXBIN__011	Akkermansia muciniphila
GCA_025544095.1	JAHQEB000000000	SAMN18871211	hylon_METABAT__237	Alistipes communis
GCA_025544255.1	JAHQDS000000000	SAMN18871202	hylon_METABAT__121	Alistipes finegoldii
GCA_025542175.1	JAHQHT000000000	SAMN18871307	T0_METABAT__132	Alistipes ihumii
GCA_025542515.1	JAHQHC000000000	SAMN18871290	rmaize_METABAT__99	Alistipes indistinctus
GCA_025542335.1	JAHQHL000000000	SAMN18871299	T0_METABAT__103	Alistipes inops
GCA_025542455.1	JAHQHE000000000	SAMN18871292	T0_MAXBIN__015	Alistipes putredinis
GCA_025544495.1	JAHQDL000000000	SAMN18871195	avicel_METABAT__44	Alistipes shahii
GCA_025543395.1	JAHQFJ000000000	SAMN18871245	nmaize_METABAT__112	Anaerobutyricum hallii
GCA_025542295.1	JAHQHM000000000	SAMN18871300	T0_METABAT__111	Anaerotignum faecicola
GCA_025541295.1	JAHQDB000000000	SAMN18871185	avicel_MAXBIN__045	Bacillota bacterium
GCA_025541775.1	JAHQIL000000000	SAMN18871325	T0_METABAT__250	Bacillota bacterium
GCA_025541655.1	JAHQIS000000000	SAMN18871332	T0_METABAT__66	Bacillota bacterium
GCA_025542435.1	JAHQHF000000000	SAMN18871293	T0_MAXBIN__022	Bacillota bacterium
GCA_025543175.1	JAHQFU000000000	SAMN18871256	pstarch_METABAT__151	Bacillota bacterium
GCA_025543495.1	JAHQFF000000000	SAMN18871241	inulin_METABAT__94	Bacillota bacterium
GCA_025543475.1	JAHQFG000000000	SAMN18871242	inulin_METABAT__98	Bacillota bacterium
GCA_025543135.1	JAHQFX000000000	SAMN18871259	pstarch_METABAT__22	Bacillota bacterium
GCA_025544195.1	JAHQDV000000000	SAMN18871205	hylon_METABAT__172	Bacillota bacterium
GCA_025543815.1	JAHQEQ000000000	SAMN18871226	inulin_METABAT__130	Bacillota bacterium
GCA_025543595.1	JAHQFA000000000	SAMN18871236	inulin_METABAT__64	Bacteroides caccae
GCA_025542715.1	JAHQGS000000000	SAMN18871280	rmaize_METABAT__170	Bacteroides fragilis
GCA_025541835.1	JAHQIK000000000	SAMN18871324	T0_METABAT__248	Bacteroides sp.
GCA_025544295.1	JAHQDR000000000	SAMN18871201	hylon_MAXBIN__084	Bacteroides sp.
GCA_025542875.1	JAHQGL000000000	SAMN18871273	rmaize_METABAT__126	Bacteroides stercoris
GCA_025541875.1	JAHQIJ000000000	SAMN18871323	T0_METABAT__242	Bacteroides uniformis
GCA_025542155.1	JAHQHU000000000	SAMN18871308	T0_METABAT__145	Barnesiella intestinihominis
GCA_025542935.1	JAHQGF000000000	SAMN18871267	rmaize_MAXBIN__026	Bifidobacterium adolescentis
GCA_025541635.1	JAHQIT000000000	SAMN18871334	T0_METABAT__9	Bifidobacterium animalis
GCA_025542915.1	JAHQGI000000000	SAMN18871270	rmaize_MAXBIN__042	Bifidobacterium bifidum
GCA_025542395.1	JAHQHH000000000	SAMN18871295	T0_MAXBIN__063	Bifidobacterium catenulatum
GCA_025542555.1	JAHQHA000000000	SAMN18871288	rmaize_METABAT__8	Bifidobacterium longum
GCA_025543515.1	JAHQFD000000000	SAMN18871239	inulin_METABAT__87	Bilophila wadsworthia
GCA_025544235.1	JAHQDT000000000	SAMN18871203	hylon_METABAT__127	Blautia glucerasea
GCA_025544355.1	JAHQDO000000000	SAMN18871198	avicel__METABAT__99	Blautia hydrogenotrophica
GCA_025542195.1	JAHQHQ000000000	SAMN18871303	T0_METABAT__122	Blautia sp.
GCA_025541675.1	JAHQIR000000000	SAMN18871331	T0_METABAT__62	Butyricimonas faecihominis
GCA_025541255.1	JAHQDC000000000	SAMN18871186	avicel__MAXBIN__131	Butyricimonas faecihominis
GCA_025541735.1	JAHQIQ000000000	SAMN18871330	T0_METABAT__60	Clostridia bacterium
GCA_025541615.1	JAHQIU000000000	SAMN18871333	T0_METABAT__97	Clostridiales bacterium
GCA_025541855.1	JAHQII000000000	SAMN18871322	T0_METABAT__240	Clostridiales bacterium
GCA_025542035.1	JAHQHY000000000	SAMN18871312	T0_METABAT__180	Clostridiales bacterium
GCA_025543095.1	JAHQGA000000000	SAMN18871262	pstarch_METABAT__69	Clostridiales bacterium
GCA_025542735.1	JAHQGR000000000	SAMN18871279	rmaize_METABAT__166	Clostridiales bacterium
GCA_025542675.1	JAHQGU000000000	SAMN18871282	rmaize_METABAT__177	Clostridiales bacterium
GCA_025542655.1	JAHQGV000000000	SAMN18871283	rmaize_METABAT__46	Clostridiales bacterium
GCA_025542615.1	JAHQGX000000000	SAMN18871284	rmaize_METABAT__56	Clostridiales bacterium
GCA_025542355.1	JAHQHK000000000	SAMN18871298	T0_MAXBIN__134	Clostridiales bacterium
GCA_025542135.1	JAHQHW000000000	SAMN18871310	T0_METABAT__167	Clostridiales bacterium
GCA_025542115.1	JAHQHV000000000	SAMN18871309	T0_METABAT__161	Clostridiales bacterium
GCA_025542855.1	JAHQGK000000000	SAMN18871272	rmaize_METABAT__106	Clostridiales bacterium
GCA_025544335.1	JAHQDN000000000	SAMN18871197	avicel__METABAT__70	Clostridiales bacterium
GCA_025543555.1	JAHQFB000000000	SAMN18871237	inulin_METABAT__82	Clostridiales bacterium
GCA_025543765.1	JAHQES000000000	SAMN18871228	inulin_METABAT__175	Clostridiales bacterium
GCA_025543975.1	JAHQEH000000000	SAMN18871218	hylon_METABAT__9	Clostridiales bacterium
GCA_025544015.1	JAHQEF000000000	SAMN18871215	hylon_METABAT__79	Clostridium sp.
GCA_025542275.1	JAHQHN000000000	SAMN18871301	T0_METABAT__114	Clostridium sp.
GCA_025542695.1	JAHQGT000000000	SAMN18871281	rmaize_METABAT__174	Clostridium sp.
GCA_025542015.1	JAHQIB000000000	SAMN18871315	T0_METABAT__195	Clostridium sp.
GCA_025541915.1	JAHQIF000000000	SAMN18871319	T0_METABAT__220	Clostridium sp.
GCA_025541795.1	JAHQIO000000000	SAMN18871328	T0_METABAT__30	Clostridium sp.
GCA_025541275.1	JAHQDA000000000	SAMN18871184	avicel__MAXBIN__007	Collinsella aerofaciens
GCA_025541715.1	JAHQIP000000000	SAMN18871329	T0_METABAT__31	Coprococcus catus
GCA_025543215.1	JAHQFT000000000	SAMN18871255	pstarch_METABAT__127	Coprococcus catus
GCA_025544155.1	JAHQDX000000000	SAMN18871207	hylon_METABAT__207	Coprococcus catus
GCA_025543895.1	JAHQEM000000000	SAMN18871222	inulin_METABAT__102	Coprococcus catus
GCA_025543855.1	JAHQEO000000000	SAMN18871224	inulin_METABAT__112	Coprococcus comes
GCA_025543015.1	JAHQGC000000000	SAMN18871264	rmaize_MAXBIN__005	Coprococcus eutactus
GCA_025543335.1	JAHQFO000000000	SAMN18871250	nmaize_METABAT__52	Cryptobacterium sp.
GCA_025543435.1	JAHQFI000000000	SAMN18871244	nmaize_MAXBIN__127	Dialister hominis
GCA_025543795.1	JAHQEP000000000	SAMN18871225	inulin_METABAT__126	Dorea formicigenerans
GCA_025542995.1	JAHQGB000000000	SAMN18871263	pstarch_METABAT__85	Dorea longicatena
GCA_025541975.1	JAHQIH000000000	SAMN18871321	T0_METABAT__222	Dorea sp.
GCA_025543995.1	JAHQEG000000000	SAMN18871216	hylon_METABAT__88	Dysosmobacter sp.
GCA_025543695.1	JAHQEV000000000	SAMN18871231	inulin_METABAT__187	Dysosmobacter sp.
GCA_025543575.1	JAHQFC000000000	SAMN18871238	inulin_METABAT__83	Dysosmobacter welbionis
GCA_025542635.1	JAHQGW000000000	SAMN18871285	rmaize_METABAT__5	Escherichia coli
GCA_025544415.1	JAHQDK000000000	SAMN18871194	avicel__METABAT__39	Eubacteriaceae bacterium
GCA_025542575.1	JAHQGZ000000000	SAMN18871287	rmaize_METABAT__76	Eubacterium ramulus
GCA_025542775.1	JAHQGP000000000	SAMN18871276	rmaize_METABAT__155	Eubacterium ventriosum
GCA_025544375.1	JAHQDM000000000	SAMN18871196	avicel__METABAT__50	Faecalibacterium prausnitzii
GCA_025543755.1	JAHQER000000000	SAMN18871227	inulin_METABAT__157	Faecalibacterium prausnitzii
GCA_025542975.1	JAHQGG000000000	SAMN18871268	rmaize_MAXBIN__031	Faecalibacterium sp.
GCA_025543235.1	JAHQFR000000000	SAMN18871253	pstarch_MAXBIN__029	Fusicatenibacter saccharivorans
GCA_025543295.1	JAHQFP000000000	SAMN18871251	nmaize_METABAT__80	Fusicatenibacter saccharivorans
GCA_025541165.1	JAHQDH000000000	SAMN18871191	avicel__METABAT__178	Fusicatenibacter saccharivorans
GCA_025541125.1	JAHQEE000000000	SAMN18871214	hylon_METABAT__53	Fusicatenibacter saccharivorans
GCA_025543635.1	JAHQEZ000000000	SAMN18871235	inulin_METABAT__40	Gemmiger formicilis
GCA_025542795.1	JAHQGO000000000	SAMN18871275	rmaize_METABAT__150	Gordonibacter urolithinfaciens
GCA_025542255.1	JAHQHP000000000	SAMN18871302	T0_METABAT__121	Gordonibacter urolithinfaciens
GCA_025542215.1	JAHQHS000000000	SAMN18871306	T0_METABAT__130	Holdemanella sp.
GCA_025543615.1	JAHQEY000000000	SAMN18871234	inulin_METABAT__33	Lachnospira eligens
GCA_025542055.1	JAHQHZ000000000	SAMN18871313	T0_METABAT__183	Lachnospiraceae bacterium
GCA_025542955.1	JAHQGH000000000	SAMN18871269	rmaize_MAXBIN__038	Lachnospiraceae bacterium
GCA_025541955.1	JAHQIE000000000	SAMN18871318	T0_METABAT__206	Lachnospiraceae bacterium
GCA_025541815.1	JAHQIM000000000	SAMN18871326	T0_METABAT__254	Lachnospiraceae bacterium
GCA_025544075.1	JAHQDZ000000000	SAMN18871210	hylon_METABAT__21	Mediterraneibacter faecis
GCA_025542465.1	JAHQHI000000000	SAMN18871296	T0_MAXBIN__071	Odoribacter splanchnicus
GCA_025541995.1	JAHQIC000000000	SAMN18871316	T0_METABAT__198	Oliverpabstia sp.
GCA_025542415.1	JAHQHG000000000	SAMN18871294	T0_MAXBIN__028	Oscillibacter sp.
GCA_025544035.1	JAHQED000000000	SAMN18871213	hylon_METABAT__44	Oscillibacter sp.
GCA_025543935.1	JAHQEI000000000	SAMN18871217	hylon_METABAT__95	Oscillibacter sp.
GCA_025543955.1	JAHQEJ000000000	SAMN18871219	inulin_MAXBIN__022	Oscillospiraceae bacterium
GCA_025543915.1	JAHQEK000000000	SAMN18871220	inulin_MAXBIN__035	Oscillospiraceae bacterium
GCA_025543535.1	JAHQFE000000000	SAMN18871240	inulin_METABAT__93	Oscillospiraceae bacterium
GCA_025543735.1	JAHQEU000000000	SAMN18871230	inulin_METABAT__180	Oscillospiraceae bacterium
GCA_025544395.1	JAHQDJ000000000	SAMN18871193	avicel__METABAT__34	Oscillospiraceae bacterium
GCA_025542095.1	JAHQHX000000000	SAMN18871311	T0_METABAT__173	Oscillospiraceae bacterium
GCA_025542895.1	JAHQGJ000000000	SAMN18871271	rmaize_MAXBIN__077	Oscillospiraceae bacterium
GCA_025541895.1	JAHQIG000000000	SAMN18871320	T0_METABAT__221	Oscillospiraceae bacterium
GCA_025541115.1	JAHQDI000000000	SAMN18871192	avicel__METABAT__20	Oscillospiraceae bacterium
GCA_025544175.1	JAHQDU000000000	SAMN18871204	hylon_METABAT__16	Parabacteroides distasonis
GCA_025543655.1	JAHQEX000000000	SAMN18871233	inulin_METABAT__31	Phocaeicola plebeius
GCA_025542595.1	JAHQGY000000000	SAMN18871286	rmaize_METABAT__61	Phocaeicola vulgatus
GCA_025542235.1	JAHQHR000000000	SAMN18871304	T0_METABAT__124	Roseburia faecis
GCA_025541935.1	JAHQID000000000	SAMN18871317	T0_METABAT__205	Roseburia hominis
GCA_025543415.1	JAHQFK000000000	SAMN18871246	nmaize_METABAT__127	Roseburia intestinalis
GCA_025542535.1	JAHQHB000000000	SAMN18871289	rmaize_METABAT__97	Roseburia inulinivorans
GCA_025543115.1	JAHQFY000000000	SAMN18871260	pstarch_METABAT__56	Roseburia sp.
GCA_025542495.1	JAHQHD000000000	SAMN18871291	T0_MAXBIN__014	Ruminococcus bicirculans (ex Wegman et al. 2014)
GCA_025544275.1	JAHQDQ000000000	SAMN18871200	hylon_MAXBIN__007	Ruminococcus bromii
GCA_025544115.1	JAHQEA000000000	SAMN18871209	hylon_METABAT__215	Ruminococcus sp.
GCA_025543055.1	JAHQGE000000000	SAMN18871266	rmaize_MAXBIN__013	Ruminococcus sp.
GCA_025543255.1	JAHQFS000000000	SAMN18871254	pstarch_METABAT__120	Ruminococcus sp.
GCA_025542835.1	JAHQGM000000000	SAMN18871274	rmaize_METABAT__133	Ruthenibacterium lactatiformans
GCA_025543455.1	JAHQFH000000000	SAMN18871243	nmaize_MAXBIN__001	Segatella copri
GCA_025542375.1	JAHQHJ000000000	SAMN18871297	T0_MAXBIN__078	Solobacterium sp.
GCA_025541755.1	JAHQIN000000000	SAMN18871327	T0_METABAT__26	Streptococcus thermophilus
GCA_025544215.1	JAHQDW000000000	SAMN18871206	hylon_METABAT__204	Streptococcus thermophilus
GCA_025543675.1	JAHQEW000000000	SAMN18871232	inulin_METABAT__212	Streptococcus thermophilus
GCA_025543275.1	JAHQFQ000000000	SAMN18871252	nmaize_METABAT__98	Subdoligranulum sp.
GCA_025543315.1	JAHQFN000000000	SAMN18871249	nmaize_METABAT__49	Sutterella wadsworthensis
GCA_025544315.1	JAHQDP000000000	SAMN18871199	hylon_MAXBIN__006	Veillonellaceae bacterium
GCA_025541155.1	JAHQDG000000000	SAMN18871190	avicel__METABAT__177	[Lactobacillus] rogosae
GCA_025543835.1	JAHQEN000000000	SAMN18871223	inulin_METABAT__107	[Ruminococcus] lactaris
GCA_025541215.1	JAHQDE000000000	SAMN18871188	avicel__METABAT__14	[Ruminococcus] torques

SRA Data Details

Parameter	Value
Data volume, Gbases	321
Data volume, Tbytes	0.18

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Human gut metagenomic sample - colon model

Metagenomics data from a colon model experiment linking carbohydrate structure with function in the human gut microbiome using short and long sequencing data

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