'Autism spectrum disorder (ASD) is a heterogeneous disorder with substantial heritability, most of which is unexplained. ASD has a population prevalence of one percent and affects four times as many males as females. Patients with fragile X E (FRAXE) intellectual disability, which is caused by a silencing of the X-linked ... More
Identifying the last supper: utility of the DNA barcode library for bloodmeal identification in ticks.
AuthorsGariepy TD, Lindsay R, Ogden N, Gregory TR
JournalMol Ecol Resour
PubMed ID22471892
'Ticks are among the most important vectors of disease in the Northern Hemisphere, and a better understanding of their feeding behaviour and life cycle is critical to the management and control of tick-borne zoonoses. DNA-based tools for the identification of residual bloodmeals in hematophagous arthropods have proven useful in the ... More
Protocols for dry DNA storage and shipment at room temperature.
AuthorsIvanova NV, Kuzmina ML
Journal
PubMed ID23789643
'The globalization of DNA barcoding will require core analytical facilities to develop cost-effective, efficient protocols for the shipment and archival storage of DNA extracts and PCR products. We evaluated three dry-state DNA stabilization systems: commercial Biomatrica(®) DNAstable(®) plates, home-made trehalose and polyvinyl alcohol (PVA) plates on 96-well panels of insect ... More
DNA mini-barcodes.
AuthorsHajibabaei M, McKenna C
JournalMethods Mol Biol
PubMed ID22684963
'Conventional DNA barcoding uses an approximately 650 bp DNA barcode of the mitochondrial gene COI for species identification in animal groups. Similar size fragments from chloroplast genes have been proposed as barcode markers for plants. While PCR amplification and sequencing of a 650 bp fragment is consistent in freshly collected ... More
Rumen microbial and fermentation characteristics are affected differently by bacterial probiotic supplementation during induced lactic and subacute acidosis in sheep.
AuthorsLettat A, Nozière P, Silberberg M, Morgavi DP, Berger C, Martin C
JournalBMC Microbiol
PubMed ID22812531
'Ruminal disbiosis induced by feeding is the cause of ruminal acidosis, a digestive disorder prevalent in high-producing ruminants. Because probiotic microorganisms can modulate the gastrointestinal microbiota, propionibacteria- and lactobacilli-based probiotics were tested for their effectiveness in preventing different forms of acidosis.' ... More
Advancing nematode barcoding: A primer cocktail for the cytochrome c oxidase subunit I gene from vertebrate parasitic nematodes.
'Although nematodes are one of the most diverse metazoan phyla, species identification through morphology is difficult. Several genetic markers have been used for their identification, but most do not provide species-level resolution in all groups, and those that do lack primer sets effective across the phylum, precluding high-throughput processing. This ... More
Cancer protection elicited by a single nucleotide polymorphism close to the adrenomedullin gene.
AuthorsMartínez-Herrero S, Martínez A
JournalJ Clin Endocrinol Metab
PubMed ID23450059
The risk of developing cancer is regulated by genetic variants, including polymorphisms. Characterizing such variants may help in developing protocols for personalized medicine.
iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks.
AuthorsRockel S, Geertz M, Hens K, Deplancke B, Maerkl SJ
JournalNucleic Acids Res
PubMed ID23258699
Mapping gene regulatory networks is a significant challenge in systems biology, yet only a few methods are currently capable of systems-level identification of transcription factors (TFs) that bind a specific regulatory element. We developed a microfluidic method for integrated systems-level interaction mapping of TF-DNA interactions, generating and interrogating an array ... More
Molecular approach to the identification of fish in the South China Sea.
AuthorsZhang J, Hanner R
JournalPLoS One
PubMed ID22363454
DNA barcoding is one means of establishing a rapid, accurate, and cost-effective system for the identification of species. It involves the use of short, standard gene targets to create sequence profiles of known species against sequences of unknowns that can be matched and subsequently identified. The Fish Barcode of Life ... More
Next-generation HLA sequencing using the 454 GS FLX system.
AuthorsTrachtenberg EA, Holcomb CL
Journal
PubMed ID23775738
Next-generation sequencing (NGS) of HLA class I and II loci (HLA-A, HLA-B, HLA-C, DRB1, DRB3, DRB4, DRB5, DQA1, DQB1, DPB1) is described here in detail using the 454 Life Sciences GS FLX System and Titanium chemistry. An overview of the protocol with our experience on sequence performance efficiencies, read depth ... More
DNA barcodes for insects.
AuthorsWilson JJ
JournalMethods Mol Biol
PubMed ID22684951
DNA barcoding refers to the technique of sequencing a short fragment of the mitochondrial cytochrome c oxidase subunit I (COI) gene, the "DNA barcode," from a taxonomically unknown specimen and performing comparisons with a reference library of barcodes of known species origin to establish a species-level identification. The library barcodes ... More
Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range extension in cultivated barley.
AuthorsZakhrabekova S, Gough SP, Braumann I, Müller AH, Lundqvist J, Ahmann K, Dockter C, Matyszczak I, Kurowska M, Druka A, Waugh R, Graner A, Stein N, Steuernagel B, Lundqvist U, Hansson M
JournalProc Natl Acad Sci U S A
PubMed ID22371569
Time to flowering has an important impact on yield and has been a key trait in the domestication of crop plants and the spread of agriculture. In 1961, the cultivar Mari (mat-a.8) was the very first induced early barley (Hordeum vulgare L.) mutant to be released into commercial production. Mari ... More
DNA barcodes identify marine fishes of São Paulo State, Brazil.
AuthorsRibeiro Ade O, Caires RA, Mariguela TC, Pereira LH, Hanner R, Oliveira C
JournalMol Ecol Resour
PubMed ID22958713
Anthropogenic impacts are an increasing threat to the diversity of fishes, especially in areas around large urban centres, and many effective conservation actions depend on accurate species identification. Considering the utility of DNA barcoding as a global system for species identification and discovery, this study aims to assemble a DNA ... More
DNA barcode analysis of butterfly species from Pakistan points towards regional endemism.
AuthorsAshfaq M, Akhtar S, Khan AM, Adamowicz SJ, Hebert PD
Journal
PubMed ID23789612
DNA barcodes were obtained for 81 butterfly species belonging to 52 genera from sites in north-central Pakistan to test the utility of barcoding for their identification and to gain a better understanding of regional barcode variation. These species represent 25% of the butterfly fauna of Pakistan and belong to five ... More
Molecular identification and characterization of ileal and cecal fungus communities in broilers given probiotics, specific essential oil blends, and under mixed Eimeria infection.
AuthorsHume ME, Hernandez CA, Barbosa NA, Sakomura NK, Dowd SE, Oviedo-Rondón EO
JournalFoodborne Pathog Dis
PubMed ID22779701
Broiler digestive tract fungal communities have gained far less scrutiny than that given corresponding bacterial communities. Attention given poultry-associated fungi have focused primarily on feed-associated toxin-producers, yeast, and yeast products. The current project focused on the use of pyrosequencing and denaturing gradient gel electrophoresis (DGGE) to identify and monitor broiler ... More