Molecular ecology resources

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Publications

volume 24, number 4, 2024

Annabel Perry, Dirk Eddelbuettel, Gil Rosenthal, Heath Blackmon
Polly: An R package for genotyping microsatellites and detecting highly polymorphic DNA markers from short-read data. Molecular ecology resources 24 (4) (2024)
Didier Pont
Predicting downstream transport distance of fish eDNA in lotic environments. Molecular ecology resources 24 (4) (2024)
Yawen Mu, Jingwen Zhang, Jianghua Yang, Jun Wu, Yong Zhang, Hongxia Yu, Xiao-Wei Zhang
Enhancing amphibian biomonitoring through eDNA metabarcoding. Molecular ecology resources 24 (4) (2024)
Armando Espinosa Prieto, Laurent Hardion, Nicolas Debortoli, Jean-Nicolas Beisel
Finding the perfect pairs: A matchmaking of plant markers and primers for multi-marker eDNA metabarcoding. Molecular ecology resources 24 (4) (2024)
Liang Yu Cui, Bo Yang Liu, Hai Meng Li, Yi Xin Zhu, Yong Heng Zhou, Chang Su, Yin Ping Tian, Hai Tao Xu, Dan Liu, Xiao Ping Li, Yue Ma, Guang Shun Jiang, Huan Liu, Shu Hui Yang, Tian Ming Lan, Yan Chun Xu
A simple and effective method to enrich endogenous DNA from mammalian faeces. Molecular ecology resources 24 (4) (2024)
Artemis Efstratiou, Arnaud Gaigher, Sven Künzel, Ana Teles, Tobias L Lenz
Template-specific optimization of NGS genotyping pipelines reveals allele-specific variation in MHC gene expression. Molecular ecology resources 24 (4) (2024)
Rita Mwima, Tin-Yu J Hui, Jonathan K Kayondo, Austin Burt
The population genetics of partial diapause, with applications to the aestivating malaria mosquito Anopheles coluzzii. Molecular ecology resources 24 (4) (2024)
Taylor Matthew Wilcox, John A Kronenberger, Michael K Young, Daniel H Mason, Thomas W Franklin, Michael K Schwartz
The unknown unknown: A framework for assessing environmental DNA assay specificity against unsampled taxa. Molecular ecology resources 24 (4) (2024)
Robert M Hechler, Melania E Cristescu
Revealing population demographics with environmental RNA. Molecular ecology resources 24 (4) (2024)
Jarrod Sopniewski, Renee A Catullo
Estimates of heterozygosity from single nucleotide polymorphism markers are context-dependent and often wrong. Molecular ecology resources 24 (4) (2024)
Annabel Perry, Dirk Eddelbuettel, Gil Rosenthal, Heath Blackmon
Polly: An R package for genotyping microsatellites and detecting highly polymorphic DNA markers from short-read data. Molecular ecology resources 24 (4) (2024)
Eleni L Petrou, Laura C Scott, Cherie M McKeeman, Andrew M Ramey
Molecular sexing of birds using quantitative PCR (qPCR) of sex-linked genes and logistic regression models. Molecular ecology resources 24 (4) (2024)
Dennis van der Pouw Kraan, Conor T Graham, Fiona Kavanagh, Luca Mirimin
Development and validation of a DNA-based multi-species biomonitoring toolkit using a high-throughput qPCR platform: A case study of Irish shellfish species. Molecular ecology resources 24 (4) (2024)
Markus Schlegel, Artemis D Treindl, Jenny Panziera, Veronika Zengerer, Deborah Zani, Jonas Brännhage, Andrin Gross
A case study on the application of spore sampling for the monitoring of macrofungi. Molecular ecology resources 24 (4) (2024)
Ewen Burban, Maud I Tenaillon, Sylvain Glémin
RIDGE, a tool tailored to detect gene flow barriers across species pairs. Molecular ecology resources 24 (4) (2024)
Louis-Stéphane Le Clercq, Antoinette Kotzé, Johannes Paul Grobler, Desiré Lee Dalton
Methylation-based markers for the estimation of age in African cheetah, Acinonyx jubatus. Molecular ecology resources 24 (4) (2024)
Tom L Jenkins
mapmixture: An R package and web app for spatial visualisation of admixture and population structure. Molecular ecology resources 24 (4) (2024)
Tamara Schenekar, Janine Baxter, Metlholo Andries Phukuntsi, Irmgard Sedlmayr, Byron Weckworth, Monica Mwale
Optimizing waterborne eDNA capture from waterholes in savanna systems under remote field conditions. Molecular ecology resources 24 (4) (2024)
Didier Pont
Predicting downstream transport distance of fish eDNA in lotic environments. Molecular ecology resources 24 (4) (2024)

volume 24, number 5, 2024

Natalie Czajka, Joseph M Northrup, Meaghan J Jones, Aaron B A Shafer
Epigenetic clocks, sex markers and age-class diagnostics in three harvested large mammals. Molecular ecology resources 24 (5) (2024)
Šet Janko, Šturm Rok, Koderman Blaž, Danilo Bevk, Andrej Gogala, Kutnjak Denis, Klemen Čandek, Gregorič Matjaž
DNA barcoding insufficiently identifies European wild bees (Hymenoptera, Anthophila) due to undefined species diversity, genus-specific barcoding gaps and database errors. Molecular ecology resources 24 (5) (2024)
Patrik Macko, Tomáš Derka, Zuzana Čiamporová-Zaťovičová, Michal Grabowski, Fedor Čiampor Jr
Detailed DNA barcoding of mayflies in a small European country proved how far we are from having comprehensive barcode reference libraries. Molecular ecology resources 24 (5) (2024)
Dorothea Heimeier, Ellen C Garland, Franca Eichenberger, Claire Garrigue, Adriana Vella, C Scott Baker, Emma L Carroll
A pan-cetacean MHC amplicon sequencing panel developed and evaluated in combination with genome assemblies. Molecular ecology resources 24 (5) (2024)
Xinyi Zhang, Haimei Chen, Yang Ni, Bin Wu, Jingling Li, Artur Burzyński, Chang Liu
Plant mitochondrial genome map (PMGmap): A software tool for the comprehensive visualization of coding, noncoding and genome features of plant mitochondrial genomes. Molecular ecology resources 24 (5) (2024)
Dmitry A Filatov
ProSeq4: A user-friendly multiplatform program for preparation and analysis of large-scale DNA polymorphism datasets. Molecular ecology resources 24 (5) (2024)
Bruno Henrique Saranholi, Filipe M França, Alfried P Vogler, Jos Barlow, Fernando Zagury Vaz-de-Mello, Maria E Maldaner, Edrielly Carvalho, Carla Cristina Gestich, Benjamin Howes, Cristina Banks-Leite, Pedro Manoel Galetti
Testing and optimizing metabarcoding of iDNA from dung beetles to sample mammals in the hyperdiverse Neotropics. Molecular ecology resources 24 (5) (2024)
Tianmin Zhang, Haohao Jing, Jinhong Wang, Le Zhao, Yang Liu, Stephen J Rossiter, Huimeng Lu, Gang Li
Evolution of olfactory receptor superfamily in bats based on high throughput molecular modelling. Molecular ecology resources 24 (5) (2024)
Şevval Aktürk, Igor Mapelli, Merve N Güler, Kanat Gürün, Büşra Katırcıoğlu, Kıvılcım Başak Vural, Ekin Sağlıcan, Mehmet Çetin, Reyhan Yaka, Elif Surer, Gözde Atağ, Sevim Seda Çokoğlu, Arda Sevkar, Ezgi N Altınışık, Dilek Koptekin, Mehmet Somel
Benchmarking kinship estimation tools for ancient genomes using pedigree simulations. Molecular ecology resources 24 (5) (2024)
Dorothea Heimeier, Ellen C Garland, Franca Eichenberger, Claire Garrigue, Adriana Vella, C Scott Baker, Emma L Carroll
A pan-cetacean MHC amplicon sequencing panel developed and evaluated in combination with genome assemblies. Molecular ecology resources 24 (5) (2024)
Dmitry A Filatov
ProSeq4: A user-friendly multiplatform program for preparation and analysis of large-scale DNA polymorphism datasets. Molecular ecology resources 24 (5) (2024)
Dmitry A Filatov
ProSeq4: A user-friendly multiplatform program for preparation and analysis of large-scale DNA polymorphism datasets. Molecular ecology resources 24 (5) (2024)
Jiyu Chen, Lu Lin, Qichao Tu, Qiannan Peng, Xiaopeng Wang, Congying Liang, Jiayin Zhou, Xiaoli Yu
Metagenomic-based discovery and comparison of the lignin degrading potential of microbiomes in aquatic and terrestrial ecosystems via the LCdb database. Molecular ecology resources 24 (5) (2024)
Eléonore Charrier, Rebecca Chen, Noelle Thundathil, John S Gilleard
A set of nematode rRNA cistron databases and a primer assessment tool to enable more flexible and comprehensive metabarcoding. Molecular ecology resources 24 (5) (2024)
Lewis G Spurgin, Mirte Bosse, Frank Adriaensen, Tamer Albayrak, Christos Barboutis, Eduardo Belda, Andrey Bushuev, Jacopo G Cecere, Anne Charmantier, Mariusz Cichon, Niels J Dingemanse, Blandine Doligez, Tapio Eeva, Kjell Einar Erikstad, Vyacheslav Fedorov, Matteo Griggio, Dieter Heylen, Sabine Hille, Camilla A Hinde, Elena Ivankina, Bart Kempenaers, Anvar Kerimov, Miloš Krist, Laura Kvist, Veronika N Laine, Raivo Mänd, Erik Matthysen, Ruedi Nager, Boris P Nikolov, Ana Claudia Norte, Markku Orell, Jenny Ouyang, Gergana Petrova-Dinkova, Heinz Richner, Diego Rubolini, Tore Slagsvold, Vallo Tilgar, János Török, Barbara Tschirren, Csongor I Vágási, Teru Yuta, Martien A M Groenen, Marcel E Visser, Kees van Oers, Ben C Sheldon, Jon Slate
The great tit HapMap project: A continental-scale analysis of genomic variation in a songbird. Molecular ecology resources 24 (5) (2024)
Longfa Fang, Mingyu Li, Jia Zhang, Chenglin Jia, Yuqing Qiang, Xiaojuan He, Tao Liu, Qiang Zhou, Dong Luo, Yuling Han, Zhen Li, Wenxian Liu, Yongzhi Yang, Jian-Quan Liu, Zhipeng Liu
Chromosome-level genome assembly of Pedicularis kansuensis illuminates genome evolution of facultative parasitic plant. Molecular ecology resources 24 (5) (2024)

volume 24, number 6, 2024

Xueling Yi, Petri Kemppainen, Juha Merilä
SLRfinder: A method to detect candidate sex-linked regions with linkage disequilibrium clustering. Molecular ecology resources 24 (6) (2024)
Leah A Owens, Mary I Thurber, Tony L Goldberg
CRISPR-Cas9-mediated host signal reduction for 18S metabarcoding of host-associated eukaryotes. Molecular ecology resources 24 (6) (2024)
Souta Nakajima, Kenji Tsuri
Testing the applicability of environmental DNA metabarcoding to landscape genetics. Molecular ecology resources 24 (6) (2024)
Leah A Owens, Mary I Thurber, Tony L Goldberg
CRISPR-Cas9-mediated host signal reduction for 18S metabarcoding of host-associated eukaryotes. Molecular ecology resources 24 (6) (2024)
Joanna R Freeland, Benjamin Sibbett, Shawn R Narum
Mini reviews: A new manuscript category for summarizing emerging topics. Molecular ecology resources 24 (6) (2024)
Wen Chen, Nathaniel Newlands, Sarah Hambleton, André Laroche, Seyyed Mohammadreza Davoodi, Guus Bakkeren
Optimizing an integrated biovigilance toolbox to study the spatial distribution and dynamic changes of airborne mycobiota, with a focus on cereal rust fungi in western Canada. Molecular ecology resources 24 (6) (2024)
Margaretha A Veltman, Bastien Anthoons, Audun Schrøder-Nielsen, Barbara Gravendeel, Hugo J de Boer
Orchidinae-205: A new genome-wide custom bait set for studying the evolution, systematics, and trade of terrestrial orchids. Molecular ecology resources 24 (6) (2024)
Leah A Owens, Mary I Thurber, Tony L Goldberg
CRISPR-Cas9-mediated host signal reduction for 18S metabarcoding of host-associated eukaryotes. Molecular ecology resources 24 (6) (2024)
Juan Li, Gabriela M Ulloa, Pedro Mayor, Meddly L Santolalla Robles, Alex David Greenwood
Nucleic acid degradation after long-term dried blood spot storage. Molecular ecology resources 24 (6) (2024)
Leah A Owens, Mary I Thurber, Tony L Goldberg
CRISPR-Cas9-mediated host signal reduction for 18S metabarcoding of host-associated eukaryotes. Molecular ecology resources 24 (6) (2024)
Giacomo Potente, Narjes Yousefi, Barbara Keller, Emiliano Mora-Carrera, Péter Szövényi, Elena Conti
The Primula edelbergii S-locus is an example of a jumping supergene. Molecular ecology resources 24 (6) (2024)
Alex J Veglia, Ramón E Rivera-Vicéns, Carsten G B Grupstra, Lauren I Howe-Kerr, Adrienne M S Correa
vAMPirus: A versatile amplicon processing and analysis program for studying viruses. Molecular ecology resources 24 (6) (2024)
Wenhao Li, Jie Song, Huaming Tu, Shouwen Jiang, Binbin Pan, Jiazhen Li, Yongpeng Zhao, Liangbiao Chen, Qianghua Xu
Genome sequencing of Coryphaenoides yaquinae reveals convergent and lineage-specific molecular evolution in deep-sea adaptation. Molecular ecology resources 24 (6) (2024)
Sandra Oliveira, Nina Marchi, Laurent Excoffier
Assessing the limits of local ancestry inference from small reference panels. Molecular ecology resources 24 (6) (2024)
Camiel Doorenweerd, Michael San Jose, Luc Leblanc, Norman Barr, Scott M Geib, Arthur Y C Chung, Julian R Dupuis, Arni Ekayanti, Elaida Fiegalan, Kennantudawage S Hemachandra, Mohammad Aftab Hossain, Chia-Lung Huang, Yu-Feng Hsu, Kimberly Y Morris, Andi Maryani A Mustapeng, Jerome Niogret, Thai Hong Pham, Nhien Thi Nguyen, Uda G A I Sirisena, Terrence Todd, Daniel Rubinoff
Towards a better future for DNA barcoding: Evaluating monophyly- and distance-based species identification using COI gene fragments of Dacini fruit flies. Molecular ecology resources 24 (6) (2024)