DNA metabarcoding of insects and allies: an evaluation of primers and pipelines.

scientific article published on 7 September 2015

DNA metabarcoding of insects and allies: an evaluation of primers and pipelines. is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1017/S0007485315000681
P698PubMed publication ID26344799
P5875ResearchGate publication ID281587817

P50authorHan Ming GanQ41584587
John-James WilsonQ58917672
P2093author name stringP-S Lee
K-W Sing
G-J Brandon-Mong
P-E Lim
P2860cites workMitochondrial heteroplasmy and DNA barcoding in Hawaiian Hylaeus (Nesoprosopis) bees (Hymenoptera: Colletidae).Q21192774
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Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgeratorQ24563732
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Basic local alignment search toolQ25938991
BARCODING: bold: The Barcode of Life Data System (http://www.barcodinglife.org)Q27860883
UCHIME improves sensitivity and speed of chimera detectionQ29547664
Phylogeny.fr: robust phylogenetic analysis for the non-specialistQ29547666
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR ampliconsQ29614292
Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplifiedQ29616342
UPARSE: highly accurate OTU sequences from microbial amplicon readsQ29616627
CD-HIT: accelerated for clustering the next-generation sequencing dataQ29616664
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Second generation sequencing and morphological faecal analysis reveal unexpected foraging behaviour by Myotis nattereri (Chiroptera, Vespertilionidae) in winter.Q30433466
High-throughput sequencing offers insight into mechanisms of resource partitioning in cryptic bat speciesQ30469823
Reliable, verifiable and efficient monitoring of biodiversity via metabarcodingQ30658943
DNA barcoding for effective biodiversity assessment of a hyperdiverse arthropod group: the ants of MadagascarQ33224898
A genomic perspective on the shortcomings of mitochondrial DNA for "barcoding" identificationQ33265026
A universal DNA mini-barcode for biodiversity analysisQ33333964
Extreme diversity of tropical parasitoid wasps exposed by iterative integration of natural history, DNA barcoding, morphology, and collectionsQ33361881
Simultaneous assessment of the macrobiome and microbiome in a bulk sample of tropical arthropods through DNA metasystematicsQ33730414
DNA barcoding of marine metazoaQ33822998
Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina readsQ33861103
DNA BARCODING: CO1 DNA barcoding amphibians: take the chance, meet the challengeQ33902785
Addressing challenges in the production and analysis of illumina sequencing dataQ33975605
Optimization of annealing temperature to reduce bias caused by a primer mismatch in multitemplate PCRQ33990121
Bioinformatic challenges for DNA metabarcoding of plants and animalsQ34225603
DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect matchQ34311426
PEAR: a fast and accurate Illumina Paired-End reAd mergeR.Q34379012
Slowing PCR ramp speed reduces chimera formation from environmental samplesQ34642521
20 years since the introduction of DNA barcoding: from theory to applicationQ34657256
Ultra-deep sequencing enables high-fidelity recovery of biodiversity for bulk arthropod samples without PCR amplification.Q34669514
A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contentsQ34773388
Using dung beetles to evaluate the effects of urbanization on Atlantic Forest biodiversityQ34954606
A pragmatic approach to the analysis of diets of generalist predators: the use of next-generation sequencing with no blocking probesQ34956240
Who's for dinner? High-throughput sequencing reveals bat dietary differentiation in a biodiversity hotspot where prey taxonomy is largely undescribedQ35015550
DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversityQ35128997
From barcoding single individuals to metabarcoding biological communities: towards an integrative approach to the study of global biodiversity.Q35235840
DNA barcodes for ecology, evolution, and conservationQ35483212
DNA barcoding implicates 23 species and four orders as potential pollinators of Chinese knotweed (Persicaria chinensis) in Peninsular Malaysia.Q35614728
Environmental metabarcodes for insects: in silico PCR reveals potential for taxonomic biasQ42003888
Assessing the effects of primer specificity on eliminating numt coamplification in DNA barcoding: a case study from Orthoptera (Arthropoda: Insecta).Q43690893
Reducing the impact of PCR-mediated recombination in molecular evolution and environmental studies using a new-generation high-fidelity DNA polymeraseQ44969128
Taxon-specific PCR for DNA barcoding arthropod prey in bat faeces.Q46602600
Mitochondrial genome size variation in New World and Old World populations of Drosophila melanogasterQ47419966
Effect of primer mismatch, annealing temperature and PCR cycle number on 16S rRNA gene-targetting bacterial community analysisQ48081041
A minimalist barcode can identify a specimen whose DNA is degradedQ56983607
Plant functional types and traits as biodiversity indicators for tropical forests: two biogeographically separated case studies including birds, mammals and termitesQ57023891
SOAPBarcode: revealing arthropod biodiversity through assembly of Illumina shotgun sequences of PCR ampliconsQ59644625
P433issue6
P921main subjectmetabarcodingQ51237016
P304page(s)717-727
P577publication date2015-09-07
P1433published inBulletin of Entomological ResearchQ15763806
P1476titleDNA metabarcoding of insects and allies: an evaluation of primers and pipelines
P478volume105

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