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List of works by Gary Xie

A 360-kb interchromosomal duplication of the human HYDIN locus

scientific article

Accurate, rapid taxonomic classification of fungal large-subunit rRNA genes

scientific article published on 22 December 2011

An attenuated strain of Bacillus anthracis (CDC 684) has a large chromosomal inversion and altered growth kinetics

scientific article

Analysis of the neurotoxin complex genes in Clostridium botulinum A1-A4 and B1 strains: BoNT/A3, /Ba4 and /B1 clusters are located within plasmids

scientific article

Biological consequences of ancient gene acquisition and duplication in the large genome of Candidatus Solibacter usitatus Ellin6076

scientific article published in 2011

Capturing single cell genomes of active polysaccharide degraders: an unexpected contribution of Verrucomicrobia.

scientific article

Cohesion group approach for evolutionary analysis of aspartokinase, an enzyme that feeds a branched network of many biochemical pathways.

scientific article published on December 2009

Common bacterial responses in six ecosystems exposed to 10 years of elevated atmospheric carbon dioxide

scientific article

Community and gene composition of a human dental plaque microbiota obtained by metagenomic sequencing.

scientific article

Comparative genomic analyses reveal broad diversity in botulinum-toxin-producing Clostridia

scientific article

Complete Genome Sequence of a thermotolerant sporogenic lactic acid bacterium, Bacillus coagulans strain 36D1.

scientific article

Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations

scientific article (publication date: June 2009)

Complete genome sequence of Arthrobacter sp. strain FB24.

scientific article published on 30 September 2013

Complete genome sequence of Francisella tularensis subspecies holarctica FTNF002-00

scientific article

Complete genome sequence of Haemophilus somnus (Histophilus somni) strain 129Pt and comparison to Haemophilus ducreyi 35000HP and Haemophilus influenzae Rd.

scientific article published on 15 December 2006

Complete genome sequence of the chemolithoautotrophic marine magnetotactic coccus strain MC-1.

scientific article published on 22 May 2009

Deficiency of BrpB causes major defects in cell division, stress responses and biofilm formation by Streptococcus mutans.

scientific article

Dynamics of Streptococcus mutans transcriptome in response to starch and sucrose during biofilm development

scientific article

From genus to phylum: large-subunit and internal transcribed spacer rRNA operon regions show similar classification accuracies influenced by database composition

scientific article

Genetic diversity within the botulinum neurotoxin-producing bacteria and their neurotoxins.

scientific article published on 11 September 2015

Genome Sequence of the Cellulolytic Gliding Bacterium Cytophaga hutchinsonii

scientific article

Genome sequence of Kingella kingae septic arthritis isolate PYKK081.

scientific article

Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)

scientific article

Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion

scholarly article

Genomic comparison of Escherichia coli O104:H4 isolates from 2009 and 2011 reveals plasmid, and prophage heterogeneity, including shiga toxin encoding phage stx2

scientific article

Genomic sequences of six botulinum neurotoxin-producing strains representing three clostridial species illustrate the mobility and diversity of botulinum neurotoxin genes

scientific article

Genomics for key players in the N cycle from guinea pigs to the next frontier

scientific article published on January 2011

Hidden Markov Model: a shortest unique representative approach to detect the protein toxins, virulence factors and antibiotic resistance genes

publication published on 30 March 2021

Large direct repeats flank genomic rearrangements between a new clinical isolate of Francisella tularensis subsp. tularensis A1 and Schu S4.

scientific article

Metagenome sequence analysis of filamentous microbial communities obtained from geochemically distinct geothermal channels reveals specialization of three aquificales lineages

scientific article

Molecular characterization of a novel botulinum neurotoxin type H gene

scientific article published on 7 October 2013

Multidrug-resistant (MDR) Klebsiella pneumoniae clinical isolates: a zone of high heterogeneity (HHZ) as a tool for epidemiological studies

scientific article

Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis ⬇️

scientific article published on 28 August 2009

Pathogen comparative genomics in the next-generation sequencing era: genome alignments, pangenomics and metagenomics.

scientific article

Pathogenomic Sequence Analysis of Bacillus cereus and Bacillus thuringiensis Isolates Closely Related to Bacillus anthracis

scientific article

Recombination and insertion events involving the botulinum neurotoxin complex genes in Clostridium botulinum types A, B, E and F and Clostridium butyricum type E strains

scientific article

Recruiting human microbiome shotgun data to site-specific reference genomes

scientific article

Saliva microbiomes distinguish caries-active from healthy human populations ⬇️

scientific article published on June 30, 2011

The DNA sequence and comparative analysis of human chromosome 5

scientific article

The alternative translational profile that underlies the immune-evasive state of persistence in Chlamydiaceae exploits differential tryptophan contents of the protein repertoire

scientific article

The complete genome sequence of Bacillus thuringiensis Al Hakam

scientific article published on 2 March 2007

The complete genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum).

scientific article published on 09 June 2008

The redox-sensing regulator Rex modulates central carbon metabolism, stress tolerance response and biofilm formation by Streptococcus mutans

scientific article

The sequence and analysis of duplication-rich human chromosome 16

scientific article

Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils

scientific article

Whole-Genome Comparative Analysis of Two Carbapenem-Resistant ST-258 Klebsiella pneumoniae Strains Isolated during a North-Eastern Ohio Outbreak: Differences within the High Heterogeneity Zones

scientific article published on 11 June 2016

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