Counting with DNA in metabarcoding studies: How should we convert sequence reads to dietary data?
出版年份 2018 全文链接
标题
Counting with DNA in metabarcoding studies: How should we convert sequence reads to dietary data?
作者
关键词
-
出版物
MOLECULAR ECOLOGY
Volume -, Issue -, Pages -
出版商
Wiley
发表日期
2018-06-02
DOI
10.1111/mec.14734
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Agriculture shapes the trophic niche of a bat preying on multiple pest arthropods across Europe: Evidence from DNA metabarcoding
- (2018) Ostaizka Aizpurua et al. MOLECULAR ECOLOGY
- Avoiding quantification bias in metabarcoding: Application of a cell biovolume correction factor in diatom molecular biomonitoring
- (2018) Valentin Vasselon et al. Methods in Ecology and Evolution
- Puffins reveal contrasting relationships between forage fish and ocean climate in the North Pacific
- (2017) William J. Sydeman et al. FISHERIES OCEANOGRAPHY
- Assessing the trophic ecology of top predators across a recolonisation frontier using DNA metabarcoding of diets
- (2017) N Hardy et al. MARINE ECOLOGY PROGRESS SERIES
- High occurrence of jellyfish predation by black-browed and Campbell albatross identified by DNA metabarcoding
- (2017) Julie C. McInnes et al. MOLECULAR ECOLOGY
- A from-benchtop-to-desktop workflow for validating HTS data and for taxonomic identification in diet metabarcoding studies
- (2017) Emmanuel Corse et al. Molecular Ecology Resources
- Reference standards for next-generation sequencing
- (2017) Simon A. Hardwick et al. NATURE REVIEWS GENETICS
- Estimating and mitigating amplification bias in qualitative and quantitative arthropod metabarcoding
- (2017) Henrik Krehenwinkel et al. Scientific Reports
- Ecosystem biomonitoring with eDNA: metabarcoding across the tree of life in a tropical marine environment
- (2017) Michael Stat et al. Scientific Reports
- Reconstructing a herbivore’s diet using a novel rbcL DNA mini-barcode for plants
- (2017) David L. Erickson et al. AoB Plants
- Assessing the trophic ecology of top predators across a recolonisation frontier using DNA metabarcoding of diets
- (2017) N Hardy et al. MARINE ECOLOGY PROGRESS SERIES
- Quantitative species-level ecology of reef fish larvae via metabarcoding
- (2017) Naama Kimmerling et al. Nature Ecology & Evolution
- Molecular dietary analysis of two sympatric felids in the Mountains of Southwest China biodiversity hotspot and conservation implications
- (2017) Mengyin Xiong et al. Scientific Reports
- Competing tradeoffs between increasing marine mammal predation and fisheries harvest of Chinook salmon
- (2017) Brandon E. Chasco et al. Scientific Reports
- Diet reconstruction using next-generation sequencing increases the known ecosystem usage by a shorebird
- (2016) Travis G. Gerwing et al. AUK
- Dietary preferences of Hawaiian tree snails to inform culture for conservation
- (2016) Richard O'Rorke et al. BIOLOGICAL CONSERVATION
- Fecal metagenomics for the simultaneous assessment of diet, parasites, and population genetics of an understudied primate
- (2016) Amrita Srivathsan et al. Frontiers in Zoology
- The use of DNA barcodes in food web construction—terrestrial and aquatic ecologists unite!
- (2016) Tomas Roslin et al. GENOME
- Quantifying relative fish abundance with eDNA: a promising tool for fisheries management
- (2016) Anaïs Lacoursière-Roussel et al. JOURNAL OF APPLIED ECOLOGY
- What you need is what you eat? Prey selection by the bat Myotis daubentonii
- (2016) Eero J. Vesterinen et al. MOLECULAR ECOLOGY
- Coming of age: ten years of next-generation sequencing technologies
- (2016) Sara Goodwin et al. NATURE REVIEWS GENETICS
- A cost-efficient and simple protocol to enrich prey DNA from extractions of predatory arthropods for large-scale gut content analysis by Illumina sequencing
- (2016) Henrik Krehenwinkel et al. Methods in Ecology and Evolution
- Optimised scat collection protocols for dietary DNA metabarcoding in vertebrates
- (2016) Julie C. McInnes et al. Methods in Ecology and Evolution
- Estimation of a Killer Whale (Orcinus orca) Population’s Diet Using Sequencing Analysis of DNA from Feces
- (2016) Michael J. Ford et al. PLoS One
- DNA Metabarcoding Reveals Diet Overlap between the Endangered Walia Ibex and Domestic Goats - Implications for Conservation
- (2016) Berihun Gebremedhin et al. PLoS One
- Environmental DNA from Seawater Samples Correlate with Trawl Catches of Subarctic, Deepwater Fishes
- (2016) Philip Francis Thomsen et al. PLoS One
- Using metabarcoding to reveal and quantify plant-pollinator interactions
- (2016) André Pornon et al. Scientific Reports
- Quantitative evaluation of bias in PCR amplification and next-generation sequencing derived from metabarcoding samples
- (2015) Marta Pawluczyk et al. ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- Organellar genome copy number variation and integrity during moderate maturation of roots and leaves of maize seedlings
- (2015) Jin Ma et al. CURRENT GENETICS
- Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental DNA
- (2015) Jesse A. Port et al. MOLECULAR ECOLOGY
- Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material
- (2015) Austen C. Thomas et al. Molecular Ecology Resources
- Tag jumps illuminated - reducing sequence-to-sample misidentifications in metabarcoding studies
- (2015) Ida Baerholm Schnell et al. Molecular Ecology Resources
- DNA metabarcoding illuminates dietary niche partitioning by African large herbivores
- (2015) Tyler R. Kartzinel et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- EpiRADseq: scalable analysis of genomewide patterns of methylation using next-generation sequencing
- (2015) Drew R. Schield et al. Methods in Ecology and Evolution
- Climatic warming and the future of bison as grazers
- (2015) Joseph M. Craine et al. Scientific Reports
- From Benchtop to Desktop: Important Considerations when Designing Amplicon Sequencing Workflows
- (2015) Dáithí C. Murray et al. PLoS One
- Can DNA-Based Ecosystem Assessments Quantify Species Abundance? Testing Primer Bias and Biomass—Sequence Relationships with an Innovative Metabarcoding Protocol
- (2015) Vasco Elbrecht et al. PLoS One
- Measuring differential gene expression with RNA-seq: challenges and strategies for data analysis
- (2014) F. Finotello et al. Briefings in Functional Genomics
- Molecular detection of trophic interactions: emerging trends, distinct advantages, significant considerations and conservation applications
- (2014) Elizabeth L. Clare Evolutionary Applications
- Special issue on molecular detection of trophic interactions: Unpicking the tangled bank
- (2014) William O. C. Symondson et al. MOLECULAR ECOLOGY
- Environmental metabarcodes for insects:in silicoPCR reveals potential for taxonomic bias
- (2014) Laurence J. Clarke et al. Molecular Ecology Resources
- Universal and blocking primer mismatches limit the use of high-throughput DNA sequencing for the quantitative metabarcoding of arthropods
- (2014) J. Piñol et al. Molecular Ecology Resources
- Fifty thousand years of Arctic vegetation and megafaunal diet
- (2014) Eske Willerslev et al. NATURE
- Parsing ecological signal from noise in next generation amplicon sequencing
- (2014) Nhu H. Nguyen et al. NEW PHYTOLOGIST
- Pyrosequencing of prey DNA in faeces of carnivorous land snails to facilitate ecological restoration and relocation programmes
- (2014) Benjamin R. Waterhouse et al. OECOLOGIA
- The Bias Associated with Amplicon Sequencing Does Not Affect the Quantitative Assessment of Bacterial Community Dynamics
- (2014) Federico M. Ibarbalz et al. PLoS One
- CopyRighter: a rapid tool for improving the accuracy of microbial community profiles through lineage-specific gene copy number correction
- (2014) Florent E Angly et al. Microbiome
- Who's for dinner? High-throughput sequencing reveals bat dietary differentiation in a biodiversity hotspot where prey taxonomy is largely undescribed
- (2013) Joanna M. Burgar et al. MOLECULAR ECOLOGY
- Improving accuracy of DNA diet estimates using food tissue control materials and an evaluation of proxies for digestion bias
- (2013) Austen C. Thomas et al. MOLECULAR ECOLOGY
- The detectability half-life in arthropod predator-prey research: what it is, why we need it, how to measure it, and how to use it
- (2013) Matthew H. Greenstone et al. MOLECULAR ECOLOGY
- An inordinate fondness for beetles? Variation in seasonal dietary preferences of night-roosting big brown bats (Eptesicus fuscus)
- (2013) Elizabeth L. Clare et al. MOLECULAR ECOLOGY
- DNA metabarcoding multiplexing and validation of data accuracy for diet assessment: application to omnivorous diet
- (2013) M. De Barba et al. Molecular Ecology Resources
- Quantifying sequence proportions in a DNA-based diet study using Ion Torrent amplicon sequencing: which counts count?
- (2013) Bruce E. Deagle et al. Molecular Ecology Resources
- A DNA Metabarcoding Study of a Primate Dietary Diversity and Plasticity across Its Entire Fragmented Range
- (2013) Erwan Quéméré et al. PLoS One
- Adélie Penguin Population Diet Monitoring by Analysis of Food DNA in Scats
- (2013) Simon N. Jarman et al. PLoS One
- From Puffins to Plankton: A DNA-Based Analysis of a Seabird Food Chain in the Northern Gulf of Maine
- (2013) A. Kirsten Bowser et al. PLoS One
- Diet analysis by next-generation sequencing indicates the frequent consumption of introduced plants by the critically endangered red-headed wood pigeon (Columba janthina nitens) in oceanic island habitats
- (2013) Haruko Ando et al. Ecology and Evolution
- Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring
- (2012) Douglas W. Yu et al. Methods in Ecology and Evolution
- Who is eating what: diet assessment using next generation sequencing
- (2011) FRANCOIS POMPANON et al. MOLECULAR ECOLOGY
- Proportion of prey consumed can be determined from faecal DNA using real-time PCR
- (2011) ELLA BOWLES et al. Molecular Ecology Resources
- Pyrosequencing faecal DNA to determine diet of little penguins: is what goes in what comes out?
- (2010) Bruce E. Deagle et al. CONSERVATION GENETICS
- Quantifying microbial communities with 454 pyrosequencing: does read abundance count?
- (2010) ANTHONY S. AMEND et al. MOLECULAR ECOLOGY
- Complexity in quantitative food webs
- (2009) Carolin Banašek-Richter et al. ECOLOGY
- Analysing diet of small herbivores: the efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures
- (2009) Eeva M Soininen et al. Frontiers in Zoology
- Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces
- (2009) BRUCE E. DEAGLE et al. MOLECULAR ECOLOGY
- New perspectives in diet analysis based on DNA barcoding and parallel pyrosequencing: thetrnL approach
- (2009) ALICE VALENTINI et al. Molecular Ecology Resources
- INVITED REVIEW: Molecular analysis of predation: a review of best practice for DNA-based approaches
- (2008) R. A. KING et al. MOLECULAR ECOLOGY
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