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Basem Al-Shayeb
Researcher at University of California, Berkeley
Publications - 31
Citations - 1927
Basem Al-Shayeb is an academic researcher from University of California, Berkeley. The author has contributed to research in topics: CRISPR & Genome. The author has an hindex of 12, co-authored 26 publications receiving 796 citations. Previous affiliations of Basem Al-Shayeb include University of Minnesota & California Institute for Quantitative Biosciences.
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Journal ArticleDOI
CasX enzymes comprise a distinct family of RNA-guided genome editors
Jun-Jie Liu,Jun-Jie Liu,Jun-Jie Liu,Natalia Orlova,Benjamin L. Oakes,Enbo Ma,Hannah Spinner,Katherine Baney,Jonathan Chuck,Dan Tan,Gavin J. Knott,Lucas B. Harrington,Basem Al-Shayeb,Alexander J. Wagner,Julian Brötzmann,Brett T. Staahl,Kian Taylor,John J Desmarais,Eva Nogales,Jennifer A. Doudna +19 more
TL;DR: The underlying mechanisms of a third, fundamentally distinct RNA-guided genome-editing platform named CRISPR–CasX, which uses unique structures for programmable double-stranded DNA binding and cleavage, are revealed.
Journal ArticleDOI
CRISPR-CasΦ from huge phages is a hypercompact genome editor.
Patrick Pausch,Basem Al-Shayeb,Ezra Bisom-Rapp,Connor A. Tsuchida,Connor A. Tsuchida,Zheng Li,Brady F. Cress,Gavin J. Knott,Gavin J. Knott,Steven E. Jacobsen,Steven E. Jacobsen,Jillian F. Banfield,Jennifer A. Doudna +12 more
TL;DR: A minimal functional CRISpr-Cas system, comprising a single ~70-kilodalton protein, CasΦ, and a CRISPR array, encoded exclusively in the genomes of huge bacteriophages, which provides a hypercompact addition to the genome-editing toolbox.
Journal ArticleDOI
Clades of huge phages from across Earth’s ecosystems
Basem Al-Shayeb,Rohan Sachdeva,Lin-Xing Chen,Fred R. Ward,Patrick Munk,Audra E. Devoto,Cindy J. Castelle,Matthew R. Olm,Keith Bouma-Gregson,Yuki Amano,Christine He,Raphaël Méheust,Brandon Brooks,Alex D. Thomas,Adi Lavy,Paula Matheus-Carnevali,Christine L. Sun,Daniela S. Aliaga Goltsman,Mikayla A. Borton,Allison Sharrar,Alexander L. Jaffe,Tara Colenbrander Nelson,Rose S. Kantor,Ray Keren,Katherine R Lane,Ibrahim F. Farag,Shufei Lei,Kari M. Finstad,Ronald Amundson,Karthik Anantharaman,Jinglie Zhou,Alexander J. Probst,Mary E. Power,Susannah G. Tringe,Wen-Jun Li,Kelly C. Wrighton,Susan T.L. Harrison,Michael J. Morowitz,David A. Relman,Jennifer A. Doudna,Anne-Catherine Lehours,Lesley A. Warren,Jamie H. D. Cate,Joanne M. Santini,Jillian F. Banfield +44 more
TL;DR: Genomic analyses of major clades of huge phages sampled from across Earth’s ecosystems show that they have diverse genetic inventories, including a variety of CRISPR–Cas systems and translation-relevant genes.
Journal ArticleDOI
Genome Sequencing of Sewage Detects Regionally Prevalent SARS-CoV-2 Variants.
Alexander Crits-Christoph,Rose S. Kantor,Matthew R. Olm,Oscar N. Whitney,Basem Al-Shayeb,Yue Clare Lou,Avi I. Flamholz,Lauren C Kennedy,Hannah D. Greenwald,Adrian Hinkle,Jonathan Hetzel,Sara Spitzer,Jeffery Koble,Asako Tan,Fred Hyde,Gary P. Schroth,Scott Kuersten,Jillian F. Banfield,Kara L. Nelson +18 more
TL;DR: In this paper, the authors used a pipeline for single nucleotide variant calling in a metagenomic context, characterized minor SARS-CoV-2 alleles in the wastewater and detected viral genotypes which were also found within clinical genomes throughout California.
Posted ContentDOI
Petabase-scale sequence alignment catalyses viral discovery
Robert C. Edgar,Jeff Taylor,Tomer Altman,Pierre Barbera,Dmitry Meleshko,Dmitry Meleshko,Victor Lin,Dan Lohr,Gherman Novakovsky,Basem Al-Shayeb,Jillian F. Banfield,Anton Korobeynikov,Rayan Chikhi,Artem Babaian +13 more
TL;DR: A free and comprehensive database of nucleic acid sequences, characterised novel viruses related to coronaviruses and to hepatitis δ virus, respectively and explored their environmental reservoirs.