Publication

Article Journal Published Tags Species
An assembly of genomic dataset sequences of the sugar beet root maggot Tetanops myopaeformis, TpSBRM_v1.0 bioRxiv 2023 DNA isolation and sequencing T. myopaeformis
Shifts in the rhizosphere microbiome and exudation profile of avocado (Persea americana Mill.) during infection by Phytophthora cinnamomi and in presence of a biocontrol bacterial strain CABI Agriculture and Bioscience 2023 16S rRNA sequencing, ITS sequencing Microbes
Elucidation of the mescaline biosynthetic pathway in peyote (Lophophora williamsii) The Plant Journal 2023 Bioinformatics Lophophora williamsii
Phenotypic and Draft Genome Sequence Analyses of a Paenibacillus sp. Isolated from the Gastrointestinal Tract of a North American Gray Wolf (Canis lupus) Appl. Microbiol 2023 Microbial Whole Genome Sequencing Paenibacillus
Sarecycline inhibits protein translation in Cutibacterium acnes 70S ribosome using a two-site mechanism Nucleic Acids Research 2023 16S Sanger Sequencing Cutibacterium acnes
Risk of Alzheimer’s Disease is Associated with Longitudinal Changes in Plasma Biomarkers in the Multiethnic Washington Heights, Inwood Columbia Aging Project Cohort medRxiv 2023 APOE genotyping Human Plasma
Endogenous expression of inactive lysine deacetylases reveals deacetylation-dependent cellular mechanisms plos one 2023 RNA-seq Cell
Mitochondrial DNA Haplogroups and Variants Predispose to Chagas Disease Cardiomyopathy Biology and Life Sciences, Parasitology 2023 Hi-SNPseq Human
Skin Microbiota of Salmonids: A Procedure to Examine Active Bacterial Populations Using an RNA-Based Approach Appl. Microbiol 2023 RNA-seq Skin Microbiota
A chromosome-scale and haplotype-resolved genome assembly of tetraploid blackberry (Rubus L. subgenus Rubus Watson) bioRxiv 2023 RNA-seq Plant
Sex hormones, sex chromosomes, and microbiota: identification of Akkermansia muciniphila as an estrogen-responsive bacterium Microbiota and Host 2023 Bacterial whole genome sequencing Bacteria
Broad-Spectrum, Potent, and Durable Ceria Nanoparticles Inactivate RNA Virus Infectivity by Targeting Virion Surfaces and Disrupting Virus–Receptor Interactions Molecules 2023 Virus RNA-seq Virus
Highly-conserved regulatory activity of the ANR family in the virulence of diarrheagenic bacteria through interaction with master and global regulators Scientific Reports 2023 DNA sequencing Bacteria
FAK loss reduces BRAFV600E-induced ERK phosphorylation to promote intestinal stemness and cecal tumor formation Research Square 2023 RNA sequencing Mice
Genomic Patterns of Iberian Wild Bees Reveal Levels of Diversity, Differentiation and Population Structure, Supporting the “Refugia within Refugia” Hypothesis Diversity 2023 RAD sequencing Wild Bees
IL-10-producing memory B regulatory cells as a novel target for HLA-G to prolong human kidney allograft survival Human Immunology 2023 RNA sequencing Human
Abundance and phylogenetic distribution of eight key enzymes of the phosphorus biogeochemical cycle in grassland soils Environmental Microbiology 2023 Metagenomic sequencing Soil microorganisms
Pinpointing Rcs3 for frogeye leaf spot resistance and tracing its origin in soybean breeding Molecular Breeding 2023 Next generation sequencing Soybean
Hybrid Genome Assembly of Berkeleyomyces rouxiae, an Emerging Cannabis Fungal Pathogen Causing Black Root-Rot in an Aeroponic Facility Plant Disease 2023 DNA sequencing erkeleyomyces rouxiae
Curtobacterium allii sp. nov., the actinobacterial pathogen causing onion bulb rot Antonie van Leeuwenhoek 2023 DNA sequencing Curtobacterium
In the land of the blind: exceptional subterranean speciation of cryptic troglobitic spiders of the genus Tegenaria (Araneae: Agelenidae) in Israel Molecular Phylogenetics and Evolution 2023 ddrad-seq Spider
Rapid evolution of competitive ability in Giant Foxtail (Setaria faberi) over 34 years Weed Science 2023 Genotyping-by-sequencing Setaria faberi
Sorgoleone degradation by sorghum-associated bacteria; an opportunity for enforcing plant growth promotion bioRxiv 2023 whole-genome sequencing Bacteria
An efficient method to prepare barcoded cDNA libraries from plant callus for long-read sequencing Methods Protoc 2023 Bioinformatics
Increased Production of Pathogenic, Airborne Fungal Spores upon Exposure of a Soil Mycobiota to Chlorinated Aromatic Hydrocarbon Pollutants Microbiology Spectrum 2023 Genotyping A. fumigatus
Natural Recombination among Type I Restriction-Modification Systems Creates Diverse Genomic Methylation Patterns among Xylella fastidiosa Strains Microbiology Spectrum 2023 Next generation sequencing X. fastidiosa
A chromosome-level genome resource for studying virulence mechanisms and evolution of the coffee rust pathogen Hemileia vastatrix bioRxiv 2022 PacBio Sequel II sequencing Hemileia vastatrix
Methylation in the CHH Context Allows to Predict Recombination in Rice Int. J. Mol. Sci 2022 Bisulfite-seq Rice
Identification of the genetic elements involved in biofilm formation by Salmonella enterica serovar Tennessee using mini-Tn10 mutagenesis and DNA sequencing Food Microbiology 2022 whole-genome sequencing Salmonella enterica
Genetic Analysis Leads to Range Extension of the Olympic Shrew (Sorex rohweri) to the Eastern Slopes of the Cascade Range in Washington State Western Wildlife 2022 DNA sequencing Sorex rohweri
Phylogenetic assessment of the Metamasius hemipterus species complex (Coleoptera, Curculionidae, Dryophthorinae) Molecular Phylogenetics and Evolution 2022 Library preparation and sequencing Metamasius
Human Immature Dental Pulp Stem Cells Did Not Graft into a Preexisting Human Lung Adenocarcinoma Case Reports in Oncology 2022 RNA sequencing Human Lung Adenocarcinoma
Chaperone-mediated autophagy controls proteomic and transcriptomic pathways to maintain glioma stem cell activity MOLECULAR CELL BIOLOGY 2022 RNA sequencing Mice
IIb-RAD-sequencing coupled with random forest classification indicates regional population structuring and sex-specific differentiation in salmon lice (Lepeophtheirus salmonis) Ecology and Evolution 2022 paired-end sequencing Lice (L. salmonis)
Pseudomonas uvaldensis sp. nov., a bacterial pathogen causing onion bulb rot Microbiology Society 2022 Bacterial sequencing Bacterial
Identification of a gut commensal that compromises the blood pressure-lowering effect of ester angiotensin-converting enzyme inhibitors Hypertension 2022 16S rRNA sequencing Gut microbes
Chaperone-mediated autophagy controls proteomic and transcriptomic 2 pathways to maintain glioma stem cell activity Cancer Res 2022 RNA sequencing Human
Haploidy and aneuploidy in switchgrass mediated by misexpression of CENH3 GENOME EDITING AND CHROMOSOME ENGINEERING IN PLANTS 2022 Novaseq PE150 sequencing Plant
Complete Genome Sequences of Four Canadian Mycoplasma bovis Strains Isolated from Bison and Cattle ASM Journals 2021 Genomic sequencing Mycoplasma bovis
Revival of Anhydrobiotic Cyanobacterium Biofilms Exposed to Space Vacuum and Prolonged Dryness: Implications for Future Missions beyond Low Earth Orbit Astrobiology 2021 Illumina Sequencing Biofilms
Identifying regulators of parental imprinting by CRISPR/Cas9 screening in haploid human embryonic stem cells Nature 2021 DNA sequencing Human
Investigating interactive effects of worry and the catechol-o-methyltransferase gene (COMT) on working memory performance Cogn Affect Behav Neurosci 2021 SNaPshot genotyping  Human saliva
Genome sequencing, annotation and exploration of the SO2-tolerant non-conventional yeast Saccharomycodes ludwigii BMC Genomics 2021 DNA sequencing yeast
Genetic Modifiers of Oral Nicotine Consumption in Chrna5 Null Mutant Mice Front. Psychiatry 2021 SNP genotyping Mutant Mice
Comparative genomic analysis of Canadian Mycoplasma bovis strains isolated from Bison and Cattle Comparative Immunology, Microbiology and Infectious Diseases 2021 Bioinformatics Mycoplasma bovis
Transferrable protection by gut microbes against STING-associated lung disease Cell Reports 2021 18S sequencing Gut microbes
Variable Response of Norepinephrine Transporter to Traumatic Stress and Relationship to Hyperarousal Front. Behav. Neurosci 2021 DNA methylation sequencing Rats
Microbial adaptation and response to high ammonia concentrations and precipitates during anaerobic digestion under psychrophilic and mesophilic conditions Water Research 2021 Whole genome sequencing Microbes
Long-term effects of dietary supplementation with olive oil and hydrogenated vegetable oil on the rumen microbiome of dairy cows Microorganisms 2021 DNA sequencing Rumen Microbiome
Genome-Wide Identification and Bioinformatics Characterization of Superoxide Dismutases in the Desiccation-Tolerant Cyanobacterium Chroococcidiopsis sp. CCMEE 029 Frontiers in Microbiology 2021 Genome sequencing Chroococcidiopsis sp. CCMEE 029
Harnessing the genetic plasticity of Porcine Circovirus type 2 to target suicidal replication Viruses 2021 DNA sequencing Porcine circovirus
Evaluating the role of coevolution in a horizontally transmitted mutualism bioRxiv 2021 DNA sequencing Bacteria
Chitinase Chit62J4 Essential for Chitin Processing by Human Microbiome Bacterium Clostridium paraputrificum J4 Molecules 2021 Bioinformatics Human Microbiome
Association of the prophage BTP1 and the prophage encoded gene, bstA, with anti-virulence of Salmonella Pathogens and Disease 2020 Whole-genome sequencing Salmonella
Complete Genome Sequence of the Lignocellulose-Degrading Actinomycete Streptomyces albus CAS922 Microbiology Resource Announcements 2020 Genome sequencing using the Oxford Nanopore sequencing platform Streptomyces albus CAS922
Mitochondrial genome of the Silvertip shark Carcharhinus albimarginatus from the British Indian Ocean Territory Mitochondrial DNA Part B Resources 2020 Mitochondrial genome sequencing Silvertip shark
The efects of atrazine on the microbiome of the eastern oyster- Crassostrea virginica Crassostrea virginica. Sci Rep 2020 16S sequencing;Statistical analysis; Microbiome of C. virginica
Change in Weight, BMI, and Body Composition in a Population-Based Intervention Versus Genetic-Based Intervention- The NOW Trial Obesity 2020 MassARRAY SNP genotyping Human
Whole-Transcriptome Analysis in Peripheral Blood Mononuclear Cells from Patients with Lipid-Specific Oligoclonal Biomedicines 2020 Next-generation sequencing Human
Article Journal Published Tags Species
Streptomyces buecherae sp. nov., an actinomycete isolated from multiple bat species Antonie van Leeuwenhoek 2020 PacBio sequencing and library preparation Actinomycete
Complete mitochondrial genome of the gray reef shark, Carcharhinus amblyrhynchos(Carcharhiniformes-Carcharhinidae) Mitochondrial DNA Part B Resources 2020 mitochondrial genome sequencing Gray reef shark
Metagenomics for taxonomy profiling- tools and approaches Bioengineered 2020 metagenomic analysis Bacteria
DNA methylome reprogramming in glioblastoma nature cancer 2020 DNA methylome human
Eye color prediction using the IrisPlex system: a limited pilot study in the Iraqi population Egyptian Journal of Forensic Sciences 2020 MassARRAY SNP genotyping human
Acidithiobacillus ferrianus sp. nov.: an ancestral extremely acidophilic and facultatively anaerobic chemolithoautotroph Extremophiles 2020.1 16S Amplicon Sequencing Environmental sample
Isolation and characterization of new human carrier peptides from two important vaccine immunogens Vaccine 2020.2 HLA Typing human
Draft Genome Sequence and Annotation of Paracoccus versutus MAL 1HM19, a Nitrate-Reducing, Sulfide-Oxidizing Bacterium Microbiology Resource Announcements 2020.3 Microbial Whole Genome Sequencing Paracoccus versutus MAL 1HM19
Integration of whole-genome DNA methylation data with RNA sequencing data to identify markers for bull fertility Animal Genetics 2020.4 Whole Genome Bisulfite Sequencing bull
DNA methyltransferase implicated in the recovery of conidiation, through successive plant passages, in phenotypically degenerated Metarhizium Applied Microbiology and Biotechnology 2020.4 Whole Genome Bisulfite Sequencing Metarhizium
Association of the prophage BTP1 and the prophage encoded gene, bstA, with anti-virulence of Salmonella Typhimurium ST313 Pathog Dis. 2020.4 Microbial Whole Genome Sequencing Salmonella Typhimurium
Genome Analysis and Replication Studies of the African Green Monkey Simian Foamy Virus Serotype 3 Strain FV2014 Viruses 2020.4 Viral Genome Sequencing simian foamy virus
Atrazine Removal from Municipal Wastewater Using a Membrane Bioreactor Int. J. Environ. Res. Public Health 2020.4 16S Amplicon Sequencing Environmental sample
Complete Genome Sequence of the Lignocellulose-Degrading Actinomycete Streptomyces albus CAS922 Microbiology Resource Announcements 2020.5 Bacterial Whole Genome de novo Sequencing;Oxford Nanopore sequencing Streptomyces albus CAS922
Mitochondrial genome of the Silvertip shark, Carcharhinus albimarginatus, from the British Indian Ocean Territory Mitochondrial DNA Part B 2020.5 mitochondrial genome Carcharhinus albimarginatus
Carotenoid Raman Signatures Are Better Preserved in Dried Cells of the Desert Cyanobacterium Chroococcidiopsis than in Hydrated Counterparts after High-Dose Gamma Irradiation life 2020.6 Microbial Whole Genome Sequencing Chroococcidiopsis sp. CCMEE 029
Biomarker Preservation and Survivability Under Extreme Dryness and Mars-Like UV Flux of a Desert Cyanobacterium Capable of Trehalose and Sucrose Accumulation Frontiers in Astronomy and Space Sciences 2020.7 Microbial Whole Genome Sequencing Chroococcidiopsis sp. CCMEE 029
The efects of atrazine on the microbiome of the eastern oyster: Crassostrea virginica Scientific Reports 2020.7 16S Amplicon Sequencing Environmental sample
Change in Weight, BMI, and Body Composition in a Population-Based Intervention Versus Genetic-Based Intervention: The NOW Trial CLINICAL TRIALS AND INVESTIGATIONS 2020.8 MassARRAY SNP genotyping human
Whole-Transcriptome Analysis in Peripheral Blood Mononuclear Cells from Patients with Lipid-Specific Oligoclonal IgM Band Characterization Reveals Two Circular RNAs and Two Linear RNAs as Biomarkers of Highly Active Disease biomedicines 2020.8 RNA-seq human
Genomic and chemical evidence for local adaptation in resistance to different herbivores in Datura stramonium Evolution 2020.9 ddRAD-seq Datura stramonium
Microbiota of the Digestive Gland of Red Abalone (Haliotis rufescens) Is Affected by Withering Syndrome microorganisms 2020.9 16S Amplicon Sequencing Intestinal flora
Streptomyces buecherae sp. nov., an actinomycete isolated from multiple bat species Antonie van Leeuwenhoek 2020.9 Bacterial Whole Genome de novo Sequencing Streptomyces buecherae sp. nov.
Comparative Evolutionary Patterns of Burkholderia cenocepacia and B. multivorans During Chronic Co-infection of a Cystic Fibrosis Patient Lung Front. Microbiol. 2020.9 Microbial Whole Genome Sequencing Burkholderia cenocepacia and B. multivorans
Complete mitochondrial genome of a gray reef shark, Carcharhinus amblyrhynchos (Carcharhiniformes: Carcharhinidae), from the Western Indian Ocean MITOCHONDRIAL DNA PART B 2020.10 mitochondrial genome Carcharhinus amblyrhynchos
RNA-Seq profiling of leukocytes reveals a sex-dependent global circular RNA upregulation in multiple sclerosis and 6 candidate biomarkers Human Molecular Genetics 2020.10 RNA-seq human
Type I Interferon acts as a major barrier to the establishment of infectious bursal disease virus (IBDV) persistent infections Journal of Virology 2020.10 Viral Genome Sequencing Infectious bursal disease virus
Hydrogen-Oxidizing Bacteria Are Abundant in Desert Soils and Strongly Stimulated by Hydration American Society for Microbiology Journals 2020.11 Metagenomic Shotgun Sequencing Environmental sample
The genetic legacy of fragmentation and overexploitation in the threatened medicinal African pepper-bark tree, Warburgia salutaris scientific reports 2020.11 SSR development Warburgia salutaris
Metagenomics for taxonomy profiling: tools and approaches Bioengineered 2020.12 Metagenomic data analysis  
Temporal genome-wide DNA methylation signature of post-smolt Pacific salmon challenged with Piscirickettsia salmonis Epigenetics 2020.12 RRBS Pacific salmon
Merkel Cell Polyomavirus Encodes Circular RNAs (circRNAs) Enabling a Dynamic circRNA/microRNA/mRNA Regulatory Network American Society for Microbiology Journals 2020.12 CircRNA Sequencing human
High-Density Mapping and Candidate Gene Analysis of Pl18 and Pl20 in Sunflower by Whole-Genome Resequencing Int. J. Mol. Sci. 2020.12 Whole Genome Sequencing sunflower
Molecular dissection of resistance gene cluster and candidate gene identification of Pl17 and Pl19 in sunflower by whole-genome resequencing Scientific Reports 2019 Whole Genome Sequencing sunflower
Genetic variants in the bipolar disorder risk locus SYNE1 that affect CPG2 expression and protein function Molecular Psychiatry 2019.1 Targeted Region Sequencing human
Phylogeny Characterization of Seb Gene Encoding Enterotoxins in Staphylococcus aureus Isolated from Raw Milk and Cheese RESEARCH ARTICLE 2019.2 Sanger sequencing Staphylococcus aureus
Immune tolerance attenuates gut dysbiosis, dysregulated uterine gene expression and high-fat diet potentiated preterm birth in mice OBSTETRICS 2019.2 16S Amplicon Sequencing Intestinal flora
Effect of Dietary Carbohydrate-to-Protein Ratio on Gut Microbiota in Atlantic Salmon (Salmo salar) animals 2019.3 16S Amplicon Sequencing Intestinal flora
Identification of diverse integron and plasmid structures carrying a novel carbapenemase among Pseudomonas species Front. Microbiol. 2019.3 Bacterial Whole Genome de novo Sequencing Pseudomonas aeruginosa
Generation of a highly attenuated strain of Pseudomonas aeruginosa for commercial production of alginate Microbial biotechnology 2019.4 Microbial Whole Genome Sequencing Pseudomonas aeruginosa
The Effect of Genetically Guided Mathematical Prediction and the Blood Pressure Response to Pharmacotherapy in Hypertension Patients Clin Med Insights Cardiol. 2019.5 MassARRAY SNP Genotyping human
Over-Expression of UV-Damage DNA Repair Genes and Ribonucleic Acid Persistence Contribute to the Resilience of Dried Biofilms of the Desert Cyanobacetrium Chroococcidiopsis Exposed to Mars-Like UV Flux and Long-Term Desiccation Front. Microbiol. 2019.10 Microbial Whole Genome Sequencing Chroococcidiopsis sp. CCMEE 029
Exploring Actinobacteria Associated With Rhizosphere and Endosphere of the Native Alpine Medicinal Plant Leontopodium nivale Subspecies alpinum Front. Microbiol. 2019.11 16S Amplicon Sequencing plant tissues
Investigation of the role of genes encoding zinc exporters zntA, zitB, and fieF during Salmonella Typhimurium infection Front. Microbiol. 2018.1 Microbial Whole Genome Sequencing Salmonella
Draft Genome Sequences of Anaplasma phagocytophilum, A. marginale, and A. ovis Isolates from Different Hosts American Society for Microbiology Journals 2018.2 Whole Genome Sequencing A. phagocytophilum (human), A. marginale (cattle), and A. ovis (goat)
Algal–bacterial synergy in treatment of winery wastewater npj clean wate 2018.5 16S Amplicon Sequencing Environmental sample
Neuropilin-1 promotes the oncogenic Tenascin-C/integrin β3 pathway and modulates chemoresistance in breast cancer cells Research article 2018.5 RNA-seq human
Downregulated PITX1 Modulated by MiR19a-3p Promotes Cell Malignancy and Predicts a Poor Prognosis of Gastric Cancer by Affecting Transcriptionally Activated PDCD5 Cell Physiol Biochem. 2018.5 ChIP-seq human
Classification of genera of Pasteurellaceae using conserved predicted protein sequences RESEARCH ARTICLE 2018.6 Microbial Whole Genome Sequencing Avibacterium gallinarum and Avibacterium paragallinarum
Alternatively spliced variants in Atlantic cod (Gadus morhua) support response to variable salinity environment Scientific Reports 2018.8 RNA-seq Gadus morhua
Circular DNA tumor viruses make circular RNAs PNAS 2018.11 CircRNA Sequencing human
Embryonic origin and genetic basis of cave associated phenotypes in the isopod crustacean Asellus aquaticus Scientific reports 2018.11 MassARRAY SNP Genotyping Asellus aquaticus
Evaluating the impact of the biocontrol agent Trichoderma harzianum ITEM 3636 on indigenous microbial communities from field soils Journal of Applied Microbiology 2018.11 16S/18S/ITS Amplicon Sequencing Environmental sample
Putrescine biosynthesis and export genes are essential for normal growth of avian pathogenic Escherichia coli BCM Microbiology 2018.12 Microbial Whole Genome Sequencing Escherichia coli
Scanning indels in the 5q22.1 region and identification of the TMEM232 susceptibility gene that is associated with atopic dermatitis in the Chinese Han population Gene 2017.3 MassARRAY SNP Genotyping human
Identification of factors required for m6A mRNA methylation in Arabidopsis reveals a role for the conserved E3 ubiquitin ligase HAKAI New phytologist 2017.5 Whole Genome Sequencing Arabidopsis
Impact of the OATP1B1 c.521T>C single nucleotide polymorphism on the pharmacokinetics of exemestane in healthy post-menopausal female volunteers ORIGINAL ARTICLE 2017.5 MassARRAY SNP Genotyping human
Complete Genome Sequence of a Naturally Occurring Simian Foamy Virus Isolate from Rhesus Macaque (SFVmmu_K3T) Genome Announc. 2017.8 Viral Genome Sequencing simian foamy virus
Identification and Initial Characterization of the Effectors of an Anther Smut Fungus and Potential Host Target Proteins Int J Mol Sci. 2017.11 cDNA Library Construction yeast
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