Metabarcoding and Metagenomics 6

Research Article

Development and evaluation of PCR primers for environmental DNA (eDNA) metabarcoding of Amphibia

Masayuki K. Sakata, Mone U. Kawata, Atsushi Kurabayashi, Takaki Kurita, Masatoshi Nakamura, Tomoyasu Shirako, Ryosuke Kakehashi, Kanto Nishikawa, Mohamad Yazid Hossman, Takashi Nishijima, Junichi Kabamoto, Masaki Miya, Toshifumi Minamoto

10.3897/mbmg.6.76534

21-02-2022

Unique: 8621 | Total: 15052

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Research Article

Comparing PCR-generated artifacts of different polymerases for improved accuracy of DNA metabarcoding

Satoshi Nagai, Sirje Sildever, Noriko Nishi, Satoshi Tazawa, Leila Basti, Takanori Kobayashi, Yoshizumi Ishino

10.3897/mbmg.6.77704

21-02-2022

Unique: 8983 | Total: 13964

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Research Article

Annual dynamics of eukaryotic and bacterial communities revealed by 18S and 16S rRNA metabarcoding in the coastal ecosystem of Sagami Bay, Japan

Sayaka Sogawa, Kenji Tsuchiya, Satoshi Nagai, Shinji Shimode, Victor S. Kuwahara

10.3897/mbmg.6.78181

28-02-2022

Unique: 4326 | Total: 7845

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Research Article

Metagenomic insights to the functional potential of sediment microbial communities in freshwater lakes

Laura Biessy, John K. Pearman, Sean Waters, Marcus J. Vandergoes, Susanna A. Wood

10.3897/mbmg.6.79265

25-03-2022

Unique: 4182 | Total: 7585

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Emerging Technique

A two-step metagenomics approach for the identification and mitochondrial DNA contig assembly of vertebrate prey from the blood meals of common vampire bats (Desmodus rotundus)

Physilia Y. S. Chua, Christian Carøe, Alex Crampton-Platt, Claudia S. Reyes-Avila, Gareth Jones, Daniel G. Streicker, Kristine Bohmann

10.3897/mbmg.6.78756

07-04-2022

Unique: 3590 | Total: 5690

Reprint: € 7,00

Data Paper

18S rDNA amplicon sequence data (V1–V3) of the Palmyra Atoll National Wildlife Refuge, Central Pacific

Brendan N. Reid, Jennifer A. Servis, Molly Timmers, Forest Rohwer, Eugenia Naro-Maciel

10.3897/mbmg.6.78762

12-04-2022

Unique: 3031 | Total: 4428

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Research Article

Comparative metagenomics of phytoplankton blooms after nutrient enrichment of oligotrophic marine waters

John K. Pearman, Laura Casas, Craig Michell, Naroa Aldanondo, Nazia Mojib, Karie Holtermann, Ioannis Georgakakis, Joao Curdia, Susana Carvalho, Amr Gusti, Xabier Irigoien

10.3897/mbmg.6.79208

12-04-2022

Unique: 2842 | Total: 4127

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Research Article

A triad of kicknet sampling, eDNA metabarcoding, and predictive modeling to assess richness of mayflies, stoneflies and caddisflies in rivers

François Keck, Samuel Hürlemann, Nadine Locher, Christian Stamm, Kristy Deiner, Florian Altermatt

10.3897/mbmg.6.79351

10-05-2022

Unique: 3339 | Total: 5125

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Case Study

The use of citizen science in fish eDNA metabarcoding for evaluating regional biodiversity in a coastal marine region: A pilot study

Masaki Miya, Tetsuya Sado, Shin-ichiro Oka, Takehiko Fukuchi

10.3897/mbmg.6.80444

23-05-2022

Unique: 6652 | Total: 14585

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Research Article

The bacterial hitchhiker’s guide to COI: Universal primer-based COI capture probes fail to exclude bacterial DNA, but 16S capture leaves metazoa behind

Sanni Hintikka, Jeanette E.L. Carlsson, Jens Carlsson

10.3897/mbmg.6.80416

31-05-2022

Unique: 3611 | Total: 5174

Reprint: € 7,00

Data Paper

COI amplicon sequence data of environmental DNA collected from the Bronx River Estuary, New York City

Eugenia Naro-Maciel, Melissa R. Ingala, Irena E. Werner, Brendan N. Reid, Allison M. Fitzgerald

10.3897/mbmg.6.80139

10-06-2022

Unique: 2913 | Total: 4179

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Research Article

Environmental DNA (eDNA) metabarcoding surveys show evidence of non-indigenous freshwater species invasion to new parts of Eastern Europe

Gert-Jan Jeunen, Tatsiana Lipinskaya, Helen Gajduchenko, Viktoriya Golovenchik, Michail Moroz, Viktor Rizevsky, Vitaliy Semenchenko, Neil J. Gemmell

10.3897/mbmg.6.e68575

10-06-2022

Unique: 3768 | Total: 5922

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Research Article

Evaluation of non-destructive DNA extraction protocols for insect metabarcoding: gentler and shorter is better

Daniel Marquina, Tomas Roslin, Piotr Łukasik, Fredrik Ronquist

10.3897/mbmg.6.78871

16-06-2022

Unique: 4154 | Total: 6403

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Research Article

Are microbes growing on flowers evil? Effects of old flower microbes on fruit set in a wild ginger with one-day flowers, Alpinia japonica (Zingiberaceae)

Nuria Jiménez Elvira, Masayuki Ushio, Shoko Sakai

10.3897/mbmg.6.84331

20-07-2022

Unique: 2589 | Total: 3911

Reprint: € 6,00

Forum Paper

A strategy for successful integration of DNA-based methods in aquatic monitoring

Philippe Blancher, Estelle Lefrançois, Frédéric Rimet, Valentin Vasselon, Christine Argillier, Jens Arle, Pedro Beja, Pieter Boets, Jeanne Boughaba, Christian Chauvin, Michael Deacon, Willie Duncan, Gunilla Ejdung, Stefania Erba, Benoit Ferrari, Helmut Fischer, Bernd Hänfling, Michael Haldin, Daniel Hering, Nicolas Hette-Tronquart, Alice Hiley, Marko Järvinen, Benjamin Jeannot, Maria Kahlert, Martyn Kelly, Julia Kleinteich, Serdar Koyuncuoğlu, Sascha Krenek, Sidsel Langhein-Winther, Florian Leese, David Mann, Rémy Marcel, Stefania Marcheggiani, Kristian Meissner, Patricia Mergen, Olivier Monnier, Frank Narendja, Diane Neu, Veronica Onofre Pinto, Alina Pawlowska, Jan Pawlowski, Martin Petersen, Sandra Poikane, Didier Pont, Marie-Sophie Renevier, Steinar Sandoy, Jonas Svensson, Rosa Trobajo, Andrea Tünde Zagyva, Iakovos Tziortzis, Berry van der Hoorn, Marlen Ines Vasquez, Kerry Walsh, Alexander Weigand, Agnès Bouchez

10.3897/mbmg.6.85652

20-07-2022

Unique: 3969 | Total: 6299

Reprint: € 6,00

Research Article

The potential of metabarcoding plant components of Malaise trap samples to enhance knowledge of plant-insect interactions

Stephanie J. Swenson, Lisa Eichler, Thomas Hörren, Andreas Kolter, Sebastian Köthe, Gerlind U. C. Lehmann, Gotthard Meinel, Roland Mühlethaler, Martin Sorg, Birgit Gemeinholzer

10.3897/mbmg.6.85213

22-07-2022

Unique: 3214 | Total: 5330

Reprint: € 6,00

Forum Paper

Introducing guidelines for publishing DNA-derived occurrence data through biodiversity data platforms

10.3897/mbmg.6.84960

02-08-2022

Unique: 3476 | Total: 5553

Reprint: € 5,00

Research Article

Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias

Jon Lapeyra Martin, Ioulia Santi, Paraskevi Pitta, Uwe John, Nathalie Gypens

10.3897/mbmg.6.85794

15-08-2022

Unique: 4782 | Total: 7705

Reprint: € 7,00

Research Article

Monitoring harmful microalgal species and their appearance in Tokyo Bay, Japan, using metabarcoding

Sirje Sildever, Noriko Nishi, Nobuharu Inaba, Taiga Asakura, Jun Kikuchi, Yasuhito Asano, Takanori Kobayashi, Takashi Gojobori, Satoshi Nagai

10.3897/mbmg.6.79471

23-08-2022

Unique: 3128 | Total: 5130

Reprint: € 8,00

Research Article

The relationship between eDNA density distribution and current fields around an artificial reef in the waters of Tateyama Bay, Japan

Nariaki Inoue, Masaaki Sato, Naoki Furuichi, Tomohito Imaizumi, Masayuki Ushio

10.3897/mbmg.6.87415

23-09-2022

Unique: 3010 | Total: 5169

Reprint: € 6,00

Research Article

Assessing the lysis of diverse pollen from bulk environmental samples for DNA metabarcoding

Madison A. Moore, Melissa K.R. Scheible, James B. Robertson, Kelly A. Meiklejohn

10.3897/mbmg.6.89753

23-09-2022

Unique: 3914 | Total: 7034

Reprint: € 6,00

Research Article

National eDNA-based monitoring of Batrachochytrium dendrobatidis and amphibian species in Norway

Omneya Ahmed Osman, Johan Andersson, Pedro M. Martin-Sanchez, Alexander Eiler

10.3897/mbmg.6.85199

07-10-2022

Unique: 3057 | Total: 5137

Reprint: € 7,00

Research Article

Metabarcoding as an effective complement of microscopic studies in revealing the composition of the diatom community – a case study of an oxbow lake of Tisza River (Hungary) with the description of a new Mayamaea species

Tibor Bíró, Mónika Duleba, Angéla Földi, Keve T. Kiss, Péter Orgoványi, Zsuzsa Trábert, Edit Vadkerti, Carlos E. Wetzel, Éva Ács

10.3897/mbmg.6.87497

07-10-2022

Unique: 3040 | Total: 5412

Reprint: € 8,00

Research Article

Environmental DNA metabarcoding is a promising method for assaying fish diversity in cenotes of the Yucatán Peninsula, Mexico

S. Elizabeth Alter, Jairo Arroyave

10.3897/mbmg.6.89857

24-10-2022

Unique: 2607 | Total: 4199

Reprint: € 6,00

Research Article

Recommendations for the preservation of environmental samples in diatom metabarcoding studies

Ana Baricevic, Cécile Chardon, Maria Kahlert, Satu Maaria Karjalainen, Daniela Maric Pfannkuchen, Martin Pfannkuchen, Frédéric Rimet, Mirta Smodlaka Tankovic, Rosa Trobajo, Valentin Vasselon, Jonas Zimmermann, Agnès Bouchez

10.3897/mbmg.6.85844

24-11-2022

Unique: 3184 | Total: 5433

Reprint: € 8,00