Frontiers in Ecology and Evolution | Phylogenetics, Phylogenomics, and Systematics

Review

Published on 11 Aug 2020

Putting COI Metabarcoding in Context: The Utility of Exact Sequence Variants (ESVs) in Biodiversity Analysis

in Phylogenetics, Phylogenomics, and Systematics

Teresita M. Porter
Mehrdad Hajibabaei

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00248

20,291 views
58 citations

Review

Published on 04 Aug 2020

The Mitochondrial Genome in Nematode Phylogenetics

in Phylogenetics, Phylogenomics, and Systematics

Elizabeth M. A. Kern
Taeho Kim
Joong-Ki Park

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00250

12,442 views
61 citations

Original Research

Published on 17 Jul 2020

Higher Genomic Variation in Wild Than Cultivated Rubber Trees, Hevea brasiliensis, Revealed by Comparative Analyses of Chloroplast Genomes

in Phylogenetics, Phylogenomics, and Systematics

Li-Ying Feng
Jin Liu
Cheng-Wen Gao
Hai-Bo Wu
Guo-Hua Li
Li-Zhi Gao

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00237

4,659 views
18 citations

Data Report

Published on 07 Jul 2020

The Complete Mitochondrial Genome of Suidasia nesbitti and Phylogenetic Relationships of Astigmata

in Phylogenetics, Phylogenomics, and Systematics

Fangyuan Dong
Weixi Fang
Yu Fang
Xuebing Zhan
Dongdong Tao
Xuan Su
Jiaoyang Xu
Yan Wang
Fei Liu
Yinhua Liu

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00194

3,404 views
1 citation

Original Research

Published on 19 Jun 2020

DNA mtCOI Barcodes for Maritime Biosecurity: A Proof of Concept in French Polynesia Ports

in Phylogenetics, Phylogenomics, and Systematics

Eva Garcia-Vazquez
Alba Ardura
Serge Planes

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00179

4,423 views
4 citations

Original Research

Published on 02 Jun 2020

Mitochondrial Genomes of Hemiarma marina and Leucocryptos marina Revised the Evolution of Cytochrome c Maturation in Cryptista

in Phylogenetics, Phylogenomics, and Systematics

Yuki Nishimura
Keitaro Kume
Keito Sonehara
Goro Tanifuji
Takashi Shiratori
Ken-ichiro Ishida
Tetsuo Hashimoto
Yuji Inagaki
Moriya Ohkuma

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00140

6,899 views
13 citations

Original Research

Published on 27 May 2020

A Tale of Winglets: Evolution of Flight Morphology in Stick Insects

in Phylogenetics, Phylogenomics, and Systematics

Yu Zeng
Connor O'Malley
Sonal Singhal
Faszly Rahim
Sehoon Park
Xin Chen
Robert Dudley

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00121

9,791 views
29 citations

Data Report

Published on 19 May 2020

Complete Mitochondrial Genomes and Bacterial Metagenomic Data From Two Species of Parasitic Avian Nasal-Mites (Rhinonyssidae: Mesostigmata)

in Phylogenetics, Phylogenomics, and Systematics

Carolina Osuna-Mascaró
Jorge Doña
Kevin P. Johnson
Rocío Esteban
Manuel de Rojas

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00142

4,765 views
11 citations

Original Research

Published on 13 May 2020

Phylogeography of Equine Infectious Anemia Virus

in Phylogenetics, Phylogenomics, and Systematics

Manuel Jara
Alba Frias-De-Diego
Gustavo Machado

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00127

8,064 views
19 citations

Review

Published on 06 Apr 2020

Sixteen Years of DNA Barcoding in China: What Has Been Done? What Can Be Done?

in Phylogenetics, Phylogenomics, and Systematics

Cai-qing Yang
Qing Lv
Ai-bing Zhang

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00057

9,727 views
22 citations

Brief Research Report

Published on 28 Feb 2020

Early Alert of Biological Risk in a Coastal Lagoon Through eDNA Metabarcoding

in Phylogenetics, Phylogenomics, and Systematics

Marcos Suarez-Menendez
Serge Planes
Eva Garcia-Vazquez
Alba Ardura

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00009

7,958 views
31 citations

Original Research

Published on 28 Feb 2020

The Cycad Genus Cycas May Have Diversified From Indochina and Occupied Its Current Ranges Through Vicariance and Dispersal Events

in Phylogenetics, Phylogenomics, and Systematics

Ledile T. Mankga
Kowiyou Yessoufou
Thendo Mugwena
Munyaradzi Chitakira

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00044

10,694 views
19 citations

Original Research

Published on 26 Feb 2020

The Essential Role of Taxonomic Expertise in the Creation of DNA Databases for the Identification and Delimitation of Southeast Asian Ambrosia Beetle Species (Curculionidae: Scolytinae: Xyleborini)

in Phylogenetics, Phylogenomics, and Systematics

Anthony I. Cognato
Gina Sari
Sarah M. Smith
Roger A. Beaver
You Li
Jiri Hulcr
Bjarte H. Jordal
Hisashi Kajimura
Ching-Shan Lin
Thai Hong Pham

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00027

13,695 views
64 citations

Original Research

Published on 21 Feb 2020

PCR Cloning Combined With DNA Barcoding Enables Partial Identification of Fish Species in a Mixed-Species Product

in Phylogenetics, Phylogenomics, and Systematics

Anthony J. Silva
Michael Kawalek
Donna M. Williams-Hill
Rosalee S. Hellberg

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2020.00028

9,851 views
13 citations

Original Research

Published on 22 Jan 2020

Phylogenetic Systematics of the Water Toad (Bufo stejnegeri) Elucidates the Evolution of Semi-aquatic Toad Ecology and Pleistocene Glacial Refugia

in Phylogenetics, Phylogenomics, and Systematics

Jonathan J. Fong
Bao-Tian Yang
Pi-Peng Li
Bruce Waldman
Mi-Sook Min

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00523

6,859 views
17 citations

Original Research

Published on 19 Dec 2019

The Challenge of DNA Barcoding Saproxylic Beetles in Natural History Collections—Exploring the Potential of Parallel Multiplex Sequencing With Illumina MiSeq

in Phylogenetics, Phylogenomics, and Systematics

Lucas Sire
Delphine Gey
Régis Debruyne
Thierry Noblecourt
Fabien Soldati
Thomas Barnouin
Guilhem Parmain
Christophe Bouget
Carlos Lopez-Vaamonde
Rodolphe Rougerie

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00495

7,149 views
20 citations

Original Research

Published on 13 Dec 2019

Whole Genome Shotgun Sequencing Detects Greater Lichen Fungal Diversity Than Amplicon-Based Methods in Environmental Samples

in Phylogenetics, Phylogenomics, and Systematics

Kyle Garrett Keepers
Cloe S. Pogoda
Kristin H. White
Carly R. Anderson Stewart
Jordan R. Hoffman
Ana Maria Ruiz
Christy M. McCain
James C. Lendemer
Nolan Coburn Kane
Erin A. Tripp

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00484

9,978 views
23 citations

Data Report

Published on 06 Dec 2019

Draft Genome Assembly of a Fouling Barnacle, Amphibalanus amphitrite (Darwin, 1854): The First Reference Genome for Thecostraca

in Phylogenetics, Phylogenomics, and Systematics

Jee-Hoon Kim
Hyunkyong Kim
Heesoo Kim
Benny K.K. Chan
Seunghyun Kang
Won Kim

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00465

6,189 views
26 citations

Perspective

Published on 04 Dec 2019

Filling in the Gaps: Adopting Ultraconserved Elements Alongside COI to Strengthen Metabarcoding Studies

in Phylogenetics, Phylogenomics, and Systematics

Mac P. Pierce

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00469

4,933 views
6 citations

Data Report

Published on 24 Oct 2019

Draft Genome Assembly and Annotation of the Gila Topminnow Poeciliopsis occidentalis

in Phylogenetics, Phylogenomics, and Systematics

Mariana Mateos
Du Kang
Christophe Klopp
Hugues Parrinello
Mateo García-Olazábal
Molly Schumer
Nathaniel K. Jue
Yann Guiguen
Manfred Schartl

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00404

6,608 views
7 citations

Original Research

Published on 07 Oct 2019

Old World and New World Phasmatodea: Phylogenomics Resolve the Evolutionary History of Stick and Leaf Insects

in Phylogenetics, Phylogenomics, and Systematics

Sabrina Simon
Harald Letsch
Sarah Bank
Thomas R. Buckley
Alexander Donath
Shanlin Liu
Ryuichiro Machida
Karen Meusemann
Bernhard Misof
Lars Podsiadlowski

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00345

28,984 views
111 citations

Review

Published on 18 Sep 2019

The Mitochondrial Genome–on Selective Constraints and Signatures at the Organism, Cell, and Single Mitochondrion Levels

in Phylogenetics, Phylogenomics, and Systematics

Noam Shtolz
Dan Mishmar

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00342

20,054 views
89 citations

Systematic Review

Published on 10 Sep 2019

Review and Interpretation of Trends in DNA Barcoding

in Phylogenetics, Phylogenomics, and Systematics

Rob DeSalle
Paul Goldstein

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00302

61,777 views
290 citations

Methods

Published on 24 May 2019

Selective Inference for Testing Trees and Edges in Phylogenetics

in Phylogenetics, Phylogenomics, and Systematics

Hidetoshi Shimodaira
Yoshikazu Terada

Frontiers in Ecology and Evolution

doi 10.3389/fevo.2019.00174

5,458 views
16 citations

180 articles

articles

Putting COI Metabarcoding in Context: The Utility of Exact Sequence Variants (ESVs) in Biodiversity Analysis

The Mitochondrial Genome in Nematode Phylogenetics

Higher Genomic Variation in Wild Than Cultivated Rubber Trees, Hevea brasiliensis, Revealed by Comparative Analyses of Chloroplast Genomes

The Complete Mitochondrial Genome of Suidasia nesbitti and Phylogenetic Relationships of Astigmata

DNA mtCOI Barcodes for Maritime Biosecurity: A Proof of Concept in French Polynesia Ports

Mitochondrial Genomes of Hemiarma marina and Leucocryptos marina Revised the Evolution of Cytochrome c Maturation in Cryptista

A Tale of Winglets: Evolution of Flight Morphology in Stick Insects

Complete Mitochondrial Genomes and Bacterial Metagenomic Data From Two Species of Parasitic Avian Nasal-Mites (Rhinonyssidae: Mesostigmata)

Phylogeography of Equine Infectious Anemia Virus

Sixteen Years of DNA Barcoding in China: What Has Been Done? What Can Be Done?

Early Alert of Biological Risk in a Coastal Lagoon Through eDNA Metabarcoding

The Cycad Genus Cycas May Have Diversified From Indochina and Occupied Its Current Ranges Through Vicariance and Dispersal Events

The Essential Role of Taxonomic Expertise in the Creation of DNA Databases for the Identification and Delimitation of Southeast Asian Ambrosia Beetle Species (Curculionidae: Scolytinae: Xyleborini)

PCR Cloning Combined With DNA Barcoding Enables Partial Identification of Fish Species in a Mixed-Species Product

Phylogenetic Systematics of the Water Toad (Bufo stejnegeri) Elucidates the Evolution of Semi-aquatic Toad Ecology and Pleistocene Glacial Refugia

The Challenge of DNA Barcoding Saproxylic Beetles in Natural History Collections—Exploring the Potential of Parallel Multiplex Sequencing With Illumina MiSeq

Whole Genome Shotgun Sequencing Detects Greater Lichen Fungal Diversity Than Amplicon-Based Methods in Environmental Samples

Draft Genome Assembly of a Fouling Barnacle, Amphibalanus amphitrite (Darwin, 1854): The First Reference Genome for Thecostraca

Filling in the Gaps: Adopting Ultraconserved Elements Alongside COI to Strengthen Metabarcoding Studies

Draft Genome Assembly and Annotation of the Gila Topminnow Poeciliopsis occidentalis

Old World and New World Phasmatodea: Phylogenomics Resolve the Evolutionary History of Stick and Leaf Insects

The Mitochondrial Genome–on Selective Constraints and Signatures at the Organism, Cell, and Single Mitochondrion Levels

Review and Interpretation of Trends in DNA Barcoding

Selective Inference for Testing Trees and Edges in Phylogenetics