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Literature DB >> 24671979

Current noise-removal methods can create false signals in ecogenomic data.

Axel G Rossberg¹, Tim Rogers, Alan J McKane.

Abstract

Mesh：

Year: 2014 PMID： 24671979 PMCID： PMC3996614 DOI： 10.1098/rspb.2014.0191

Source DB: PubMed Journal: Proc Biol Sci ISSN： 0962-8452 Impact factor: 5.349

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9 in total

1. Fast, accurate error-correction of amplicon pyrosequences using Acacia.

Authors: Lauren Bragg; Glenn Stone; Michael Imelfort; Philip Hugenholtz; Gene W Tyson
Journal: Nat Methods Date: 2012-04-27 Impact factor: 28.547

Review 2. Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises.

Authors: S Creer; V G Fonseca; D L Porazinska; R M Giblin-Davis; W Sung; D M Power; M Packer; G R Carvalho; M L Blaxter; P J D Lambshead; W K Thomas
Journal: Mol Ecol Date: 2010-03 Impact factor: 6.185

3. The use of mean instead of smallest interspecific distances exaggerates the size of the "barcoding gap" and leads to misidentification.

Authors: Rudolf Meier; Guanyang Zhang; Farhan Ali
Journal: Syst Biol Date: 2008-10 Impact factor: 15.683

4. Spontaneous genetic clustering in populations of competing organisms.

Authors: Tim Rogers; Alan J McKane; Axel G Rossberg
Journal: Phys Biol Date: 2012-10-31 Impact factor: 2.583

5. A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.

Authors: M J Morgan; D Bass; H Bik; C W Birky; M Blaxter; M D Crisp; S Derycke; D Fitch; D Fontaneto; C M Hardy; A J King; K C Kiontke; T Moens; J W Pawlowski; D Porazinska; C Q Tang; W K Thomas; D K Yeates; S Creer
Journal: Proc Biol Sci Date: 2014-03-26 Impact factor: 5.349

2 in total

Review 1. Censusing marine eukaryotic diversity in the twenty-first century.

Authors: Matthieu Leray; Nancy Knowlton
Journal: Philos Trans R Soc Lond B Biol Sci Date: 2016-09-05 Impact factor: 6.237

2. Random sampling causes the low reproducibility of rare eukaryotic OTUs in Illumina COI metabarcoding.

Authors: Matthieu Leray; Nancy Knowlton
Journal: PeerJ Date: 2017-03-22 Impact factor: 2.984

2 in total

Current noise-removal methods can create false signals in ecogenomic data.

1. Fast, accurate error-correction of amplicon pyrosequences using Acacia.

Review 2. Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises.

3. The use of mean instead of smallest interspecific distances exaggerates the size of the "barcoding gap" and leads to misidentification.

4. Spontaneous genetic clustering in populations of competing organisms.

5. A critique of Rossberg et al.: Noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets.

6. Second-generation environmental sequencing unmasks marine metazoan biodiversity.

7. Are there species smaller than 1 mm?

8. Improved inference of taxonomic richness from environmental DNA.

9. Does the DNA barcoding gap exist? - a case study in blue butterflies (Lepidoptera: Lycaenidae).

Review 1. Censusing marine eukaryotic diversity in the twenty-first century.

2. Random sampling causes the low reproducibility of rare eukaryotic OTUs in Illumina COI metabarcoding.