SantiagoSanchezF/mgnify_study_descriptions huggingface dataset:
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - metaG 1546A-02 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA367284.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - metaG 1449C-02 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA367280.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - metaG 1449B-02 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA367279.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - metaG 1449A-02 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA367278.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - metaG S.737 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365290.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - High salinity metaG S.579 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365289.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.753 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365278.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.571 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365275.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.709 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365274.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Estuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.689 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365272.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - CAN11_66_BLW_10 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366975.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - CAN11_48_BLW_10 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366974.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - CAN11_07_M0_10 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366972.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Marine hydrothermal vent microbial communities from Guaymas Basin, Gulf of California to study Microbial Dark Matter (Phase II) - Marker 14 Mat core 4571-4 33-36 cm metaG metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365033.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Coral reef.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Coral reef
EMG produced TPA metagenomics assembly of the Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - SI037_S4LV_200m_DNA metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366996.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Estuary.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Estuary
EMG produced TPA metagenomics assembly of the North Pond site U1382 metagenome (marine sediment metagenome) data set.

The marine sediment metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA360271.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Sediment.

Biome: root:Environmental:Aquatic:Marine:Sediment
EMG produced TPA metagenomics assembly of the Marine microbial community from Cabo Rojo, Puerto Rico -PR CR 10% Liquid 2 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA337757.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Marine microbial community from Union City, CA, USA - Pond 1C Liquid 3 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA336779.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Salt marsh.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Salt marsh
EMG produced TPA metagenomics assembly of the Microbial communities from multiple species of Shipworm: Sample from Bankia setacea gill BSg1 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA336867.  This project includes samples from the following biomes: Host-associated, Mollusca.

Biome: root:Host-associated:Mollusca
EMG produced TPA metagenomics assembly of the Microbial communities from multiple species of Shipworm: Sample from Bankia setacea gill BSg2 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA336726.  This project includes samples from the following biomes: Host-associated, Mollusca.

Biome: root:Host-associated:Mollusca
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - C0912_C49A8_80 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA329533.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - C0912_C49A8_35 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA330316.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Oceanic oxygen minimum zone microbial communities that regulate carbon cycling - Sample ETNP201406SV69 (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA323946.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Bioluminiscent Bay, La Parguera, Puerto Rico - Tt and P1 (2) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366501.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Bioluminiscent Bay, La Parguera, Puerto Rico - Tt and M2 (2) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366381.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Bioluminiscent Bay, La Parguera, Puerto Rico - Tt and E1 (2) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366502.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Eden Landing Ponds, California, USA - A23 M2 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366383.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Salt marsh.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Salt marsh
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Eden Landing Ponds, California, USA - A23 M3 (2) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366483.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Salt marsh.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Salt marsh
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Eden Landing Ponds, California, USA - A23 E3 (3) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366384.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Intertidal zone, Salt marsh.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Salt marsh
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Bioluminiscent Bay, La Parguera, Puerto Rico - Tt and E2 (3) metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366504.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Aerobic enrichment media from Bioluminiscent Bay, La Parguera, Puerto Rico - Tt and P1 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366674.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Ammonia-oxidizing marine microbial communities from Monterey Bay, California, USA - CAN11_54_BLW_10 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA366976.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Freshwater microbial mat bacterial communities from Lake Vanda, McMurdo Dry Valleys, Antarctica - Oligotrophic Lake LV.19.MP7.G1 metagenome (microbial mat metagenome) data set.

The microbial mat metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA368330.  This project includes samples from the following biomes: Environmental, Aquatic, Freshwater, Lake.

Biome: root:Environmental:Aquatic:Freshwater:Lake
EMG produced TPA metagenomics assembly of the Pelagic marine microbial communities from North Sea - COGITO_mtgs_110519 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA365016.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Human gut microbiome in AS (human gut metagenome) data set.

The human gut metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA353560.  This project includes samples from the following biomes: Host-associated, Human, Digestive system, Large intestine.

Biome: root:Host-associated:Human:Digestive system
EMG produced TPA metagenomics assembly of the Marine microbial communities from the Deep Pacific Ocean - MP2098 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA330087.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Marine microbial communities from the Deep Pacific Ocean - MP2097 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA330118.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the Marine microbial communities from the Deep Atlantic Ocean - MMD0.2 metagenome (marine metagenome) data set.

The marine metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA330084.  This project includes samples from the following biomes: Environmental, Aquatic, Marine.

Biome: root:Environmental:Aquatic:Marine
EMG produced TPA metagenomics assembly of the human oral metagenome Raw sequence reads (human oral metagenome) data set.

The human oral metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA292588.  This project includes samples from the following biomes: Host-associated, Human, Digestive system, Oral.

Biome: root:Host-associated:Human:Digestive system:Oral
EMG produced TPA metagenomics assembly of the Human sputum and synthetic metagenomic samples (synthetic metagenome) data set.

The synthetic metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA287929.  This project includes samples from the following biomes: Engineered, Modeled, Simulated communities (DNA mixture), Host-associated, Human, Digestive system, Oral.

Biome: root:Host-associated:Human:Digestive system:Oral
EMG produced TPA metagenomics assembly of the Great Barrier Reef lagoon metagenomic survey (seawater metagenome) data set.

The seawater metagenome Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJNA276060.  This project includes samples from the following biomes: Environmental, Aquatic, Marine, Brackish.

Biome: root:Environmental:Aquatic:Marine:Intertidal zone:Coral reef
EMG produced TPA metagenomics assembly of the Genome sequence of Blattabacterium cuenoti str. BPAY (Blattabacterium cuenoti BPAY) data set.

The Blattabacterium cuenoti BPAY Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJDB1602.  This project includes samples from the following biomes: Host-associated, Insecta, Digestive system

Biome: root:Host-associated:Insecta:Digestive system
EMG produced TPA metagenomics assembly of the gut microbiota from an obese human (SRP012035) data set.

The SRP012035 Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: SRP012035.  This project includes samples from the following biomes: Host-associated, Human, Digestive system, Large intestine, Fecal.

Biome: root:Host-associated:Human:Digestive system:Large intestine:Fecal
EMG produced TPA metagenomics assembly of the Impact of LAB supplementation in drinking water on chicken crop and ceca (LSA LAB in drinking water) data set.

The LSA LAB in drinking water Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set: PRJEB17637.  This project includes samples from the following biomes: Host-associated, Birds, Digestive system, Crop, Lumen.

Biome: root:Host-associated:Birds:Digestive system:Ceca
Parasitic nematodes modulate the expression of IL-17-associated genes through host type 2 immunity-dependent inhibition of segmented filamentous bacteria

Immune modulation by helminth (worm) parasites could protect the host against autoimmune diseases. We report that the parasitic nematode Nippostrongylus brasiliensis induces changes in the expression of antimicrobial peptides that are associated with marked microbial composition shifts, including reductions of segmented filamentous bacteria (SFB), a group of Gram-positive, anaerobic, spore-forming Clostridia, in ileal, jejunal, colon and fecal samples. SFB reduction correlates with decreased intestinal expression of T helper 17 (Th17) cell response markers. While infection of mice genetically deficient in the type 2 response-inducing signature cytokine IL-13 and the STAT6-activated cell signaling pathway failed to reproduce these phenotypes, administration of the type 2 response-inducing cytokine IL-25 activated a similar response in wild type mice as infection with N. brasiliensis. The reduced capacity to evoke Th17 responses resulted in increased susceptibility of N. brasiliensis-infected mice to co-infection with the bacterial pathogen Citrobacter rodentium. Our results demonstrate that helminth parasite infection alters the intestinal microbiota with SFB functioning as an immune-modulatory target for a Th17-dependent anti-inflammatory mechanism.

Biome: root:Host-associated:Animal:Digestive system
Kallisti Limnes subsea pools Metagenome Study

Metagenome studies of the Kallisti Limnes, carbon dioxide-accumulating subsea pools

Biome: root:Environmental:Aquatic:Marine:Hydrothermal vents
Gut microbiota of yellow-necked mouse (Apodemus flavicollis)

Microbiota variation in five gut sections of yellow-necked mouse (Apodemus flavicollis) was analyzed using pyrosequencing of V1-V3 16s rRNA.

Biome: root:Host-associated:Animal:Digestive system
Microbiota Dogs

Microbiota Dogs

Biome: root:Host-associated:Animal:Digestive system:Fecal