Publications by authors named "J D Selengut"
The most popular CRISPR-SpCas9 system recognizes canonical NGG protospacer adjacent motifs (PAMs). Previously engineered SpCas9 variants, such as Cas9-NG, favor G-rich PAMs in genome editing. In this manuscript, we describe a new plant genome-editing system based on a hybrid iSpyMacCas9 platform that allows for targeted mutagenesis, C to T base editing, and A to G base editing at A-rich PAMs.
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- - The study explores CRISPR-Cas12a as an effective genome editing tool for AT-rich regions, specifically tested on rice, by screening nine different orthologs and discovering six with high editing activity.
- - Among the identified variants, Mb2Cas12a is highlighted for its impressive editing efficiency and performance at low temperatures, and an engineered variant (Mb2Cas12a-RVRR) allows for broader PAM targeting.
- - A comparison of 12 multiplexed Cas12a systems reveals a highly effective method capable of nearly 100% biallelic editing across up to 16 sites in rice, setting a new record for plant genome editing using this technology.
TIGRFAMs, available online at http://www.jcvi.org/tigrfams is a database of protein family definitions.
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- The whole genome analysis of two Leptospira licerasiae strains reveals insights into their potential pathogenicity and evolutionary history among leptospiral species.
- A comparative study of eight genomes identified a core set of 1547 genes, including 452 that are likely related to pathogenicity, highlighting L. licerasiae's ability to thrive in laboratory environments due to its retention of specific metabolic proteins.
- The presence of unique genomic features, such as two prophage elements and a short O-antigen locus, suggests L. licerasiae can exchange genes through lateral gene transfer, indicating its closer genetic relationship to pathogenic Leptospira than to non-infectious species.
Bacteria in the 16S rRNA clade SAR86 are among the most abundant uncultivated constituents of microbial assemblages in the surface ocean for which little genomic information is currently available. Bioinformatic techniques were used to assemble two nearly complete genomes from marine metagenomes and single-cell sequencing provided two more partial genomes. Recruitment of metagenomic data shows that these SAR86 genomes substantially increase our knowledge of non-photosynthetic bacteria in the surface ocean.
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