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Accession: PRJEB43192 ID: 703914

HoloFood Super Study

Optimising food production is not only of commercial interest for companies, but with the planet’s population approaching the nine billion mark, also of critical importance for humanity. Animal food production can be optimised by modulating animal-associated microbiomes through the use of feed additives such as prebiotics and probiotics. Previously developed feed additives have not acknowledged the specific means of action of the additives on the microbiome and host organisms, and consequently i) their performance is inconsistent across animals with different genetic background and when grown under different environments, ii) improvement of feed additives is inefficient and costly, and iii) optimal solutions are unlikely to be found without taking a more holistic approach. More...
AccessionPRJEB43192
TypeUmbrella project
SubmissionRegistration date: 22-Feb-2021
UNIVERSITY OF COPENHAGEN
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (total)11564
WGS master1093
SRA Experiments3655
Publications
PubMed1
PMC1
Other datasets
BioSample4724
Assembly1093
SRA Data Details
ParameterValue
Data volume, Gbases16,772
Data volume, Tbytes10.01
This project encompasses the following 18 sub-projects:
Project TypeNumber of Projects
Genome sequencing
Highest level of assembly :
Contigs

6
BioProject
accession
Assembly
level
NameTitle
PRJEB40874 ContigsEMG produced TPA metagenomics assembly of PRJEB14491 data set (metagenomic Shotgun analysis of cecum microbiome of poultry).EMG produced TPA metagenomics assembly of PRJEB14491 data set (metagenomic Shotgun analysis of cecum microbiome of poultry). (EMG)
PRJEB41356 ContigsEMG produced TPA metagenomics assembly of PRJEB22062 data set (As part of the EFFORT project, we sampled feces from pig and poultry livestock in nine European countries (BE, BG, DK, FR, ES, GE, NL, PL, SP). More than 9000 animals were sampled, across 181 pig and 178 poultry herds to generate herd-level composite fecal samples. Using shotgun metagenomics, we have quantified and characterized the antimicrobial resistance gene pools (resistomes) in Europe’s two most intensively raised livestock species.).EMG produced TPA metagenomics assembly of PRJEB22062 data set (As part of the EFFORT project, we sampled feces from pig and poultry livestock in nine European countries (BE, BG, DK, FR, ES, GE, NL, PL, SP). More than 9000 animals were sampled, across 181 pig and 178 poultry herds to generate herd-level composite fecal samples. Using shotgun metagenomics, we have quantified and characterized the antimicrobial resistance gene pools (resistomes) in Europe’s two most intensively raised livestock species.). (EMG)
PRJEB41355 ContigsEMG produced TPA metagenomics assembly of PRJNA193217 data set (Chicken cecal contents Metagenome).EMG produced TPA metagenomics assembly of PRJNA193217 data set (Chicken cecal contents Metagenome). (EMG)
PRJEB55374 ContigsHoloFood Chicken Caecum MAG catalogueHoloFood Chicken Caecum MAG catalogue (UNIVERSITY OF COPENHAGEN)
PRJEB55375 ContigsHoloFood Chicken Ileum MAG catalogueHoloFood Chicken Ileum MAG catalogue (UNIVERSITY OF COPENHAGEN)
List all 6 'Genome sequencing' projects...
Other12
BioProject
accession
NameTitle
PRJEB41323HoloFood Chicken Caecum Metagenome – deeply sequenced batchHoloFood Chicken Caecum Metagenome – deeply sequenced batch (UNIVERSITY OF COPENHAGEN)
PRJEB46550HoloFood Chicken Caecum Metagenome – extreme sizes batchHoloFood Chicken Caecum Metagenome – extreme sizes batch (UNIVERSITY OF COPENHAGEN)
PRJEB52139HoloFood Chicken Caecum MetatranscriptomeHoloFood Chicken Caecum Metatranscriptome (UNIVERSITY OF COPENHAGEN)
PRJEB39110HoloFood Chicken Caecum+Ileum MetagenomeHoloFood Chicken Caecum+Ileum Metagenome (UNIVERSITY OF COPENHAGEN)
PRJEB47613HoloFood Chicken Caecum+Ileum Metagenome – non-targeted metabolomics batchHoloFood Chicken Caecum+Ileum Metagenome – non-targeted metabolomics batch (UNIVERSITY OF COPENHAGEN)
List all 12 'Other' projects...

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