Author

R. A. Hanafy

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· 5

Signature Assays, Organisms & Methods

Click to filter · or open tag

Assay:bulk RNA-seq· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 1 Research Focus:chromatin & epigenetic regulation· 1 Approach:deep learning· 1 Research Focus:ecology & biodiversity· 1 Approach:experimental assay· 1 Assay:metagenomics· 1

Frequent Co-Authors

J. E. Stajich· 3 shared M. S. Elshahed· 3 shared N. H. Youssef· 3 shared Y. Wang· 3 shared C. J. Pratt· 2 shared M. Elshahed· 2 shared A. L. Goetsch· 1 shared A. L. Jones· 1 shared

Activity by Year

2019-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 37 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

3 shared papersMicrobiology

J. E. Stajich

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Patterns and determinants of the global herbivorous mycobiome

C. Meili, A. L. Jones, A. X. Arreola, j. Habel, C. J. Pratt, R. A. Hanafy, Y. Wang, A. S. Yassin, M. A. TagElDein, C. Moon, P. H. Janssen, M. Shrestha, P. Rajbhandari, M. Nagler, J. M. Vinzelj, , M. S. Elshahed

The paper analyzes AGF diversity across 661 fecal samples from 34 herbivorous species, identifying 56 novel genera and showing that both stochastic and deterministic processes shape AGF communities, with hindgut fermenters having stronger host-specific associations.

bioRxiv · Nov 21, 2022Microbiology

Phylogenomic analysis of the Neocallimastigomycota: Proposal of Caecomycetaceae fam. nov., Piromycetaceae fam. nov., and emended description of the families Neocallimastigaceae and Anaeromycetaceae

R. A. Hanafy, Y. Wang, J. E. Stajich, C. J. Pratt, N. H. Youssse, M. S. Elshahed

This paper uses phylogenomic analysis of transcriptomic data to reclassify anaerobic gut fungi into four families and emend existing ones, providing quantitative estimates for taxonomic ranks.

bioRxiv · Jul 4, 2022Microbiology

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.

International Journal of Systematic and Evolutionary Microbiology · Jun 23, 2021Peer-reviewedMicrobiology

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

Horizontal gene transfer as an indispensible driver for Neocallimastigomycota evolution into a distinct gut-dwelling fungal lineage

C. Murphy, N. Youssef, R. A. Hanafy, M. Couger, J. E. Stajich, Y. Wang, K. Baker, S. Dagar, G. Griffith, I. Farag, T. Callaghan, M. S. Elshahed

This paper identifies 283 horizontal gene transfer events in anaerobic gut fungi, showing HGT's role in their adaptation to the herbivorous gut environment.

bioRxiv · Jan 30, 2019Microbiology