Author

M. Elshahed

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Microbiology· 8 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Assay:metagenomics· 5 Approach:experimental assay· 4 Approach:statistical model· 4 Research Focus:cell type annotation· 3 Assay:bulk RNA-seq· 2 Research Focus:ecology & biodiversity· 2 Organism:mouse· 2 Organism:non-human primate· 2

Frequent Co-Authors

N. H. Youssef· 7 shared A. L. Jones· 2 shared C. Meili· 2 shared C. Pratt· 2 shared R. A. Hanafy· 2 shared R. Hanafy· 2 shared Y. Wang· 2 shared A. Foote· 1 shared

Activity by Year

2019-2023 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

7 shared papersMicrobiology

N. H. Youssef

Mutual co-authors in cluster

Author profile →

9 papers

Recent·Most cited

Anaerobic fungi in the tortoise alimentary tract illuminate early stages of host-fungal symbiosis and Neocallimastigomycota evolution

C. Pratt, C. Meili, A. L. Jones, D. K. Jackson, E. E. England, Y. Wang, S. Hartson, J. Rogers, M. Elshahed, N. H. Youssef

This paper identifies novel anaerobic gut fungi in tortoises, revealing their ancient evolutionary origin and reduced metabolic capabilities compared to mammalian counterparts.

bioRxiv · Aug 25, 2023 · PreprintMicrobiology

Anaerobic gut fungal communities in marsupial hosts

A. Jones, C. Pratt, C. Meili, R. M. Soo, P. Hugenholtz, M. Elshahed, N. H. Youssef

This study characterizes anaerobic gut fungal communities in marsupials, finding low abundance and lack of host-specific selection compared to placental herbivores.

bioRxiv · May 31, 2023Microbiology

Temporal progression of anaerobic fungal communities in dairy calves from birth to maturity

A. L. Jones, J. Clayburn, E. Pribil, A. Foote, D. Montgomery, M. Elshahed, N. H. Youssef

This study tracks anaerobic fungal communities in dairy calves from birth to maturity, finding rapid colonization, shifts in diversity and structure, and maternal transmission.

bioRxiv · Mar 22, 2023Microbiology

Comparative Transcriptomics and Genomics from Continuous Axenic Media Growth Identifies Coxiella burnetii Intracellular Survival Strategies

A. Yadav, M. Brewer, M. Elshahed, E. I. Shaw

The paper identifies Coxiella burnetii survival strategies by comparing transcriptomic and genomic changes during axenic growth.

bioRxiv · Feb 6, 2023 · PreprintMicrobiology

Microbial diversity and sulfur cycling in an early earth analogue: From ancient novelty to modern commonality

C. R. Hahn, I. Farag, C. Murphy, M. Podar, M. Elshahed, N. H. Youssef

The paper examines microbial diversity and sulfur cycling in an anoxic spring, showing ancient microbial lineages and processes that reflect early Earth conditions and the impact of oxygenation.

bioRxiv · Jul 5, 2021Microbiology

Paucimyces polynucleatus gen. nov, sp. nov., a novel polycentric genus of anaerobic gut fungi from the feces of a wild blackbuck antelope

R. A. Hanafy, N. H. Youssef, M. Elshahed

The paper isolates and characterizes a novel anaerobic gut fungus from a blackbuck antelope, describing a new genus and species, Paucimyces polynucleatus.

bioRxiv · Mar 4, 2021Microbiology

Assessing anaerobic gut fungal (Neocalliamstigomycota) diversity using PacBio D1/D2 LSU rRNA amplicon sequencing and multi-year isolation

R. A. Hanafy, B. Johnson, N. H. Youssef, M. Elshahed

This study develops and applies D1/D2 LSU rRNA amplicon sequencing using PacBio to assess anaerobic gut fungal diversity in herbivores, identifying novel lineages and improving culturability.

bioRxiv · Mar 24, 2020Microbiology

Seven new Neocallimastigomycota genera from fecal samples of wild, zoo-housed, and domesticated herbivores: Description of Ghazallomyces constrictus gen. nov., sp. nov., Aklioshbomyces papillarum gen. nov., sp. nov., Agriosomyces longus gen. nov., sp. nov., Capellomyces foraminis gen. nov., sp. nov. and Capellomyces elongatus sp. nov., Joblinomyces apicalis gen. nov., sp. nov., Khoyollomyces ramosus gen. nov., sp. nov., and Tahromyces munnarensis gen. nov., sp. nov.

R. Hanafy, V. Lanjekar, P. Dhakephalkar, T. Callaghan, S. S. Dagar, G. W. Griffith, M. Elshahed, N. H. Youssef

The paper describes seven new genera and eight new species of Neocallimastigomycota fungi isolated from herbivore fecal samples, expanding known diversity in this group.

bioRxiv · May 20, 2019 · PreprintMicrobiology

Molecular dating of the emergence of anaerobic rumen fungi and the impact of laterally acquired genes

Y. Wang, N. Youssef, M. Couger, R. Hanafy, M. Elshahed, J. E. Stajich

This study estimates the divergence time of anaerobic rumen fungi and identifies laterally acquired genes that contribute to their plant biomass degradation capabilities.

bioRxiv · Feb 28, 2019Evolutionary Biology