High-quality RNA extraction and regulation of carb... (ID 887131) - BioProject

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Accession: PRJNA887131 ID: 887131

High-quality RNA extraction and regulation of carbohydrate active enzymes is correlated with stage of growth in anaerobic fungi

High-quality RNA extraction and regulation of carbohydrate active enzymes is correlated with stage of growth in anaerobic fungi Metagenome

In this work, we establish a method and timeframe for high-quality RNA extraction from both anaerobic fungal monocultures of Anaeromyces robustus and fungal-methanogen co-cultures of A. robustus and Methanobacterium bryantii to determine whether conclusions regarding upregulation of genes such as carbohydrate active enzymes (CAZymes) in fungal-methanogen co-culture hold true throughout the fungal exponential growth phase.

Accession	PRJNA887131
Type	Umbrella project
Submission	Registration date: 4-Oct-2022 DOE Joint Genome Institute
Related Resources	GOLD
Relevance	Environmental

Project Data:

Resource Name	Number of Links
Sequence data
SRA Experiments	35
Other datasets
BioSample	39

SRA Data Details

Parameter	Value
Data volume, Gbases	160
Data volume, Mbytes	50483

High-quality RNA extraction and regulation of carbohydrate active enzymes is correlated with stage of growth in anaerobic fungi encompasses the following 39 sub-projects:

Project Type

Number of Projects

metagenome

BioProject accession	Organism	Title
PRJNA653390	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C1D2 (DOE Joint Genome Institute)
PRJNA653391	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C2D2 (DOE Joint Genome Institute)
PRJNA653392	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C3D2 (DOE Joint Genome Institute)
PRJNA653393	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C4D2 (DOE Joint Genome Institute)
PRJNA653394	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C5D3 (DOE Joint Genome Institute)

List all 21 'metagenome' projects...

BioProject accession	Organism	Title
PRJNA653390	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C1D2 (DOE Joint Genome Institute)
PRJNA653391	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C2D2 (DOE Joint Genome Institute)
PRJNA653392	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C3D2 (DOE Joint Genome Institute)
PRJNA653393	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C4D2 (DOE Joint Genome Institute)
PRJNA653394	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C5D3 (DOE Joint Genome Institute)
PRJNA653395	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C7D3 (DOE Joint Genome Institute)
PRJNA653396	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C8D3 (DOE Joint Genome Institute)
PRJNA653397	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C9D4 (DOE Joint Genome Institute)
PRJNA653398	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C10D4 (DOE Joint Genome Institute)
PRJNA653399	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C11D4 (DOE Joint Genome Institute)
PRJNA653400	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C12D4 (DOE Joint Genome Institute)
PRJNA653401	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C13D5 (DOE Joint Genome Institute)
PRJNA653402	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C14D5 (DOE Joint Genome Institute)
PRJNA653403	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C15D5 (DOE Joint Genome Institute)
PRJNA653404	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C16D5 (DOE Joint Genome Institute)
PRJNA653405	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C17D6 (DOE Joint Genome Institute)
PRJNA653406	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C18D6 (DOE Joint Genome Institute)
PRJNA653407	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C19D6 (DOE Joint Genome Institute)
PRJNA653408	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C20D6 (DOE Joint Genome Institute)
PRJNA653409	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C22D7 (DOE Joint Genome Institute)
PRJNA653410	fungus metagenome	Metatranscriptome of Anaeromyces robustus S4 x Methanobacterium bryantii co-culture from UC Santa Barbara, California, United States - C24D7 (DOE Joint Genome Institute)

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transcriptome

BioProject accession	Organism	Title
PRJNA652845	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M1D2 transcriptome (DOE Joint Genome Institute)
PRJNA652846	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M2D2 transcriptome (DOE Joint Genome Institute)
PRJNA652847	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M4D2 transcriptome (DOE Joint Genome Institute)
PRJNA652848	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M5D3 transcriptome (DOE Joint Genome Institute)
PRJNA652849	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M6D3 transcriptome (DOE Joint Genome Institute)

List all 18 'transcriptome' projects...

BioProject accession	Organism	Title
PRJNA652845	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M1D2 transcriptome (DOE Joint Genome Institute)
PRJNA652846	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M2D2 transcriptome (DOE Joint Genome Institute)
PRJNA652847	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M4D2 transcriptome (DOE Joint Genome Institute)
PRJNA652848	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M5D3 transcriptome (DOE Joint Genome Institute)
PRJNA652849	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M6D3 transcriptome (DOE Joint Genome Institute)
PRJNA652850	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M7D3 transcriptome (DOE Joint Genome Institute)
PRJNA652851	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M8D3 transcriptome (DOE Joint Genome Institute)
PRJNA652852	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M9D4 transcriptome (DOE Joint Genome Institute)
PRJNA652853	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M10D4 transcriptome (DOE Joint Genome Institute)
PRJNA652854	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M11D4 transcriptome (DOE Joint Genome Institute)
PRJNA652855	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M12D4 transcriptome (DOE Joint Genome Institute)
PRJNA652856	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M13D5 transcriptome (DOE Joint Genome Institute)
PRJNA652857	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M14D5 transcriptome (DOE Joint Genome Institute)
PRJNA652858	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M15D5 transcriptome (DOE Joint Genome Institute)
PRJNA652859	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M16D5 transcriptome (DOE Joint Genome Institute)
PRJNA652860	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M17D6 transcriptome (DOE Joint Genome Institute)
PRJNA652861	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M19D6 transcriptome (DOE Joint Genome Institute)
PRJNA652862	Anaeromyces robustus	Anaeromyces robustus S4 Gene Expression Profiling - M20D6 transcriptome (DOE Joint Genome Institute)

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High-quality RNA extraction and regulation of carbohydrate active enzymes is correlated with stage of growth in anaerobic fungi

High-quality RNA extraction and regulation of carbohydrate active enzymes is correlated with stage of growth in anaerobic fungi Metagenome

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