Works Published in 2013
Displaying works 101 - 120 of 319 in total
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2013 journal article
Estrogenic Control of Behavioral Sex Change in the Bluehead Wrasse, Thalassoma bifasciatum
Integrative and Comparative Biology, 53(6), 951–959.
MeSH headings : Analysis of Variance; Animals; Aromatase / genetics; Aromatase / metabolism; Belize; Cloning, Molecular; Coral Reefs; DNA Primers / genetics; DNA, Complementary / genetics; Estradiol / metabolism; Female; Hermaphroditic Organisms / physiology; In Situ Hybridization; Male; Observation; Perciformes / physiology; RNA, Messenger / metabolism; Sex Determination Processes / physiology; Sexual Behavior, Animal / physiology; Signal Transduction / physiology; Time Factors
TL;DR:
The lack of behavioral sex change coupled with increased levels of aromatase mRNA are consistent with an inhibitory role for E2, likely of neural origin, in regulating socially controlled sex change.
(via Semantic Scholar)
academic.oup.com (publisher PDF)
UN Sustainable Development Goal Categories
14. Life Below Water
(Web of Science; OpenAlex)
Sources: Crossref, NC State University Libraries
Added: January 3, 2020
2013 journal article
In vitro reconstitution of Cascade-mediated CRISPR immunity in Streptococcus thermophilus
The EMBO Journal, 32(3), 385–394.
author keywords: DNA interference; DNA-dependent ATPase; nuclease
MeSH headings : Adaptive Immunity / immunology; Adenosine Triphosphate / metabolism; Base Sequence; Chromatography, High Pressure Liquid; Cloning, Molecular; DNA Cleavage; DNA Helicases / metabolism; Denaturing Gradient Gel Electrophoresis; Electrophoretic Mobility Shift Assay; In Vitro Techniques; Mass Spectrometry; Molecular Sequence Data; Plasmids / metabolism; RNA, Bacterial / genetics; RNA, Bacterial / immunology; Repetitive Sequences, Nucleic Acid / genetics; Repetitive Sequences, Nucleic Acid / immunology; Ribonucleoproteins / immunology; Ribonucleoproteins / metabolism; Rosaniline Dyes; Sequence Analysis, DNA; Streptococcus thermophilus / enzymology; Streptococcus thermophilus / immunology; Streptococcus thermophilus / virology
TL;DR:
It is shown that Cas3 binding to the displaced strand in the R‐loop triggers DNA cleavage, and if ATP is present, Cas3 further degrades DNA in a unidirectional manner, establishing a molecular basis for CRISPR immunity in St‐CRISPR4‐Cas and other Type I systems.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
Association of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Elements with Specific Serotypes and Virulence Potential of Shiga Toxin-Producing Escherichia coli
Applied and Environmental Microbiology, 80(4), 1411–1420.
MeSH headings : Cluster Analysis; Clustered Regularly Interspaced Short Palindromic Repeats; DNA, Bacterial / chemistry; DNA, Bacterial / genetics; Genotype; Molecular Sequence Data; Sequence Analysis, DNA; Serotyping; Shiga-Toxigenic Escherichia coli / classification; Shiga-Toxigenic Escherichia coli / genetics; Shiga-Toxigenic Escherichia coli / pathogenicity; Virulence Factors / genetics
TL;DR:
There was no association identified between the presence of subtype I-E cas and virulence genes, but the total number of spacers had a negative correlation with potential pathogenicity, and the relationship between the CRISPR-cas system and potential virulence needs to be determined on a broader scale.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: ORCID, NC State University Libraries
Added: January 2, 2020
2013 journal article
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04
BMC Genomics, 14(1), 312.
author keywords: Bifidobacterium lactis; Transcriptomics; ABC transporter; GPH transporter; Prebiotics; Glycoside hydrolase
MeSH headings : Bifidobacterium / drug effects; Bifidobacterium / genetics; Cell Membrane / drug effects; Cell Membrane / metabolism; Data Mining; Gene Expression Profiling; Genetic Variation / genetics; Genomics; Multigene Family / genetics; Oligosaccharides / pharmacology; Prebiotics; Transcription, Genetic / drug effects; Up-Regulation / drug effects
TL;DR:
This study identified the differential gene expression for utilization of potential prebiotics highlighting the extensive capabilities of Bifidobacterium lactis Bl-04 to utilize oligosaccharides.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: ORCID
Added: January 2, 2020
2013 journal article
CRISPR-MVLST subtyping of Salmonella enterica subsp. enterica serovars Typhimurium and Heidelberg and application in identifying outbreak isolates
BMC Microbiology, 13(1), 254.
author keywords: CRISPR subtyping; CRISPR-MVLST; Molecular subtyping; Salmonella Heidelberg; Salmonella Typhimurium
MeSH headings : DNA, Bacterial / chemistry; DNA, Bacterial / genetics; Disease Outbreaks; Electrophoresis, Gel, Pulsed-Field; Foodborne Diseases / epidemiology; Foodborne Diseases / microbiology; Humans; Molecular Sequence Data; Molecular Typing / methods; Salmonella Infections / epidemiology; Salmonella Infections / microbiology; Salmonella enterica / classification; Salmonella enterica / genetics; Salmonella enterica / isolation & purification; Sequence Analysis, DNA; United States
TL;DR:
Pulsed-field Gel Electrophoresis (PFGE) and a recently developed molecular subtyping approach termed CRISPR-MVLST that exploits the hypervariable nature of virulence genes and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) to subtype clinical S. Typhimurium and S. Heidelberg isolates are analyzed.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
A Snapshot into the Metabolism of Isomalto-oligosaccharides in Probiotic Bacteria
Journal of Applied Glycoscience, 60(2), 95–100.
TL;DR:
Genetic, transcriptomic, enzymatic, and biophysical analyses are used to explore IMO utilization routes in probiotic lactobacilli and bifidobacteria as represented by Lactobacillus acidophilus NCFM and BifidOBacterium animalis subsp.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 book
Source: ORCID
Added: January 2, 2020
2013 book
TL;DR:
Applications of the versatile CRISPR-Cas systems in microbial community context and their implications for genotyping and regulation of physiological processes are studied.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
The Evolutionary Divergence of Shiga Toxin-Producing Escherichia coli Is Reflected in Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Spacer Composition
Applied and Environmental Microbiology, 79(18), 5710–5720.
MeSH headings : Cluster Analysis; Clustered Regularly Interspaced Short Palindromic Repeats; DNA, Bacterial / chemistry; DNA, Bacterial / genetics; Evolution, Molecular; False Negative Reactions; False Positive Reactions; Genetic Variation; Molecular Sequence Data; Real-Time Polymerase Chain Reaction / methods; Sensitivity and Specificity; Sequence Analysis, DNA; Shiga-Toxigenic Escherichia coli / classification; Shiga-Toxigenic Escherichia coli / genetics; United States
TL;DR:
Conservation of CRISPR arrays among isolates expressing the same flagellar antigen, specifically, H7, H2, and H11, suggested that these isolates share an ancestor and provided an explanation for the false positives previously observed in the qPCR results.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(OpenAlex)
Source: ORCID
Added: January 2, 2020
2013 journal article
The combination of CRISPR-MVLST and PFGE provides increased discriminatory power for differentiating human clinical isolates of Salmonella enterica subsp. enterica serovar Enteritidis
Food Microbiology, 34(1), 164–173.
author keywords: Salmonella Enteritidis; CRISPR-MVLST; Molecular subtyping
MeSH headings : Bacterial Typing Techniques / methods; Electrophoresis, Gel, Pulsed-Field / methods; Feces / microbiology; Humans; Inverted Repeat Sequences; Molecular Sequence Data; Phylogeny; Polymerase Chain Reaction / methods; Salmonella Infections / microbiology; Salmonella enteritidis / classification; Salmonella enteritidis / genetics; Salmonella enteritidis / isolation & purification; Urine / microbiology
TL;DR:
CRISPR sequence data shows subtle but distinct differences among different alleles of S. Enteritidis, suggesting that evolution of these loci occurs vertically, as opposed to previously reported evolution by spacer acquisition in other bacteria.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
The Population and Evolutionary Dynamics of Phage and Bacteria with CRISPR–Mediated Immunity
PLoS Genetics, 9(3), e1003312.
Ed(s): D. Hughes
MeSH headings : Bacteriophages / genetics; Bacteriophages / immunology; Base Sequence; Biological Evolution; DNA, Intergenic / genetics; Genetics, Population; Immunity / genetics; Interspersed Repetitive Sequences / genetics; Models, Theoretical; Molecular Sequence Data; Mutation; Sequence Analysis, DNA; Streptococcus thermophilus / genetics; Streptococcus thermophilus / immunology; Streptococcus thermophilus / virology
TL;DR:
It is postulated that the invasion of phage into populations of BIMs resistant by the acquisition of one (but not two) spacers and the establishment of a BIM–CEM arms race than predicted from existing assumptions about phage infection and CRISPR–cas immunity can be attributed to the phages infection-associated production of enzymes or other compounds.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
Complete Genome Sequence of Probiotic Strain Lactobacillus acidophilus La-14
Genome Announcements, 1(3), e00376–13-e00376–13.
TL;DR:
Globally, 111 single nucleotide polymorphisms (SNPs) were observed throughout the genome of Lactobacillus acidophilus strain La-14 and a 416-bp deletion in the LA14_1146 sugar ABC transporter was identified.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: ORCID
Added: January 2, 2020
2013 journal article
Strong bias in the bacterial CRISPR elements that confer immunity to phage
Nature Communications, 4, 1430.
MeSH headings : Autoimmunity / genetics; Bacteriophages / physiology; Biological Evolution; DNA, Intergenic / genetics; Genetic Loci / genetics; Genome, Viral / genetics; High-Throughput Nucleotide Sequencing; Host-Pathogen Interactions / genetics; Immunity / genetics; Inverted Repeat Sequences / genetics; Open Reading Frames / genetics; Polymorphism, Single Nucleotide / genetics; Streptococcus thermophilus / genetics; Streptococcus thermophilus / immunology; Streptococcus thermophilus / virology
TL;DR:
A strong and reproducible bias in the phage genome locations from which spacers derive is detected, suggesting selection for specific spacers based on location and effectiveness in CRISPR–Cas systems.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
RNA-guided genome editing à la carte
Cell Research, 23(6), 733–734.
MeSH headings : CRISPR-Cas Systems / genetics; Clustered Regularly Interspaced Short Palindromic Repeats / genetics; DNA Restriction Enzymes; Endonucleases; Genetic Engineering; Humans; Plasmids / genetics; RNA / genetics; RNA / metabolism; RNA Editing / genetics; RNA, Guide, Kinetoplastida / genetics; RNA, Small Interfering / genetics; Viruses / genetics
TL;DR:
Two recent papers in Science illustrate how the prokaryotic CRISPR-Cas immune system machinery, which typically targets invasive genetic elements such as viruses and plasmids, can be converted into a sophisticated molecular tool for next-generation human genome editing.
(via Semantic Scholar)
Source: ORCID
Added: January 2, 2020
2013 journal article
Lactobacillus buchneri Genotyping on the Basis of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Locus Diversity
Applied and Environmental Microbiology, 80(3), 994–1001.
MeSH headings : Clustered Regularly Interspaced Short Palindromic Repeats; DNA, Bacterial / chemistry; DNA, Bacterial / genetics; Food Microbiology; Genetic Variation; Genotype; Lactobacillus / classification; Lactobacillus / genetics; Lactobacillus / isolation & purification; Molecular Sequence Data; Molecular Typing / methods; Sequence Analysis, DNA
TL;DR:
Findings suggest that type II-A CRISPR-Cas systems are valuable for genotyping of L. buchneri, a species relevant for commercial silage, bioethanol, and vegetable fermentations.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Sources: ORCID, NC State University Libraries
Added: January 2, 2020
2013 conference paper
Teaching tropical plant pathology to a global audience
PHYTOPATHOLOGY, 103(6), 189–189.
Event: AMER PHYTOPATHOLOGICAL SOC 3340 PILOT KNOB ROAD, ST PAUL, MN 55121 USA
Source: ORCID
Added: December 20, 2019
2013 journal article
The Pandemic in 2009
Plant Disease, 97(3), 297.
Source: ORCID
Added: December 20, 2019
2013 journal article
The 2009 late blight pandemic in the eastern United States--causes and results
Plant Disease, 97(3), 296–306.
Source: ORCID
Added: December 20, 2019
2013 journal article
Reconstructing genome evolution in historic samples of the Irish potato famine pathogen
Nature Communications, 4, 2172.
Source: ORCID
Added: December 20, 2019
2013 conference paper
Deep sequencing of ribosomal footprints for studying genome-wide mRNA translation in plants
2013 IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2013.
Contributors: K. Merchante n, Q. Hu n, A. Stepanova n , J. Eonso & S. Heber n
TL;DR:
The goal of this project is to develop genomic tools for the qualitative and quantitative characterization of the plant translatome, and it is hoped ribosome footprinting will allow researchers to correlate precisely mRNA features with translation efficiency, and open the way to investigate globally the mechanism of protein synthesis and its regulation at an unprecedented level of detail.
(via Semantic Scholar)
Source: ORCID
Added: December 19, 2019
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