Article
Engineering, Marine
Bo Liu, Yali Yan, Nan Zhang, Huayang Guo, Baosuo Liu, Jingwen Yang, Kecheng Zhu, Dianchang Zhang
Summary: Species markers can be assessed quickly and accurately using DNA barcoding. In this study, we used DNA barcoding to investigate the parrotfish family Scaridae in Hainan, and found that DNA barcoding can be an effective tool for monitoring, protecting, and managing fisheries, as well as for addressing taxonomic issues.
JOURNAL OF MARINE SCIENCE AND ENGINEERING
(2022)
Article
Veterinary Sciences
Luis M. Hernandez-Triana, Javier A. Garza-Hernandez, Aldo Ortega Morales, Sean W. J. Prosser, Paul D. N. Hebert, Nadya Nikolova, Elsa Barrero, Erick de J. de Luna-Santillana, Vicente H. Gonzalez-Alvarez, Ramon Mendez-Lopez, Rahuel J. Chan-Chable, Anthony R. Fooks, Mario A. Rodriguez-Perez
Summary: This study in Mexico analyzed mosquito feeding preferences and blood meal sources from RNA extracts, identifying multiple organisms from a single extract for the first time. A total of 1,634 mosquito specimens were collected, with four new species records for Mexico and nine new records for Chiapas State. High intraspecific divergence values were observed in certain taxa, and blood meal analysis revealed feeding preferences of different mosquito species.
FRONTIERS IN VETERINARY SCIENCE
(2021)
Article
Multidisciplinary Sciences
Jeganathan Pandiyan, Arun Zachariah, Bathrachalam Chandramohan, Shahid Mahboob, Khalid A. Al-Ghanim, Zaib-Un-Nisa, Marcello Nicoletti, Marimuthu Govindarajan
Summary: This study used cytochrome c oxidase I (COI) to analyze the DNA barcodes and assess the relationship among waterbird species. The phylogenetic tree and sequence alignment of COI revealed genetic differences and conserved haplotypes among the species.
JOURNAL OF KING SAUD UNIVERSITY SCIENCE
(2022)
Article
Entomology
Wolfgang Paill, Stephan Koblmueller, Thomas Friess, Barbara-Amina Gereben-Krenn, Christian Mairhuber, Michael J. Raupach, Lukas Zangl
Summary: The study provides the first reliable record of Pterostichus adstrictus in the Austrian Alps, confirming its southernmost distribution edge. Further research demonstrates the seasonal occurrence and habitat preferences of P. adstrictus in the region.
Article
Biochemistry & Molecular Biology
Lynne M. Christianson, Shannon B. Johnson, Darrin T. Schultz, Steven H. D. Haddock
Summary: Despite historical difficulties in studying ctenophores, new primers have successfully amplified COI fragments, highlighting high diversity and supporting ecological and morphological differences among species. These new tools provide important advancements for researchers in exploring ctenophore diversity on a global scale.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Multidisciplinary Sciences
Muhammad Ashfaq, Arif M. Khan, Akhtar Rasool, Saleem Akhtar, Naila Nazir, Nazeer Ahmed, Farkhanda Manzoor, Jayme Sones, Kate Perez, Ghulam Sarwar, Azhar A. Khan, Muhammad Akhter, Shafqat Saeed, Riffat Sultana, Hafiz Muhammad Tahir, Muhammad A. Rafi, Romana Iftikhar, Muhammad Tayyib Naseem, Mariyam Masood, Muhammad Tufail, Santosh Kumar, Sabila Afzal, Jaclyn McKeown, Ahmed Ali Samejo, Imran Khaliq, Michelle L. D'Souza, Shahid Mansoor, Paul D. N. Hebert
Summary: This study used DNA barcoding to survey the insect diversity in Pakistan and found that the knowledge about insect species in Pakistan is limited. Most species can only be classified into order and family, with only a small portion classified into genus and species. The study also found that a majority of the insect species in Pakistan are unique to the country, but some species are also reported in neighboring countries.
Review
Zoology
Cheng-Qi Zhu, Xiao-Dong Xu, Ying Zhen
Summary: The Luciolinae genus Emeia was studied and classified in this research. Phylogenetic analysis based on DNA barcoding sequences determined the classification of Emeia genus and revealed a new species. A key for identifying Emeia species using males is provided in the article.
Review
Agriculture, Dairy & Animal Science
Saima Naz, Ahmad Manan Mustafa Chatha, Rifat Ullah Khan
Summary: DNA barcoding and mini barcoding using COI gene are effective methods for accurate identification of species and biodiversity. This study aims to develop a reference database of fishes and evaluate the applicability of COI gene for species identification. The observed sequence length for fish species in DNA barcoding was 500-700 base pairs, while for DNA mini barcoding, it was 80-650 base pairs. These methods not only describe known and unknown samples, but also detect previously un-sampled species. Overall, these methods are important for species identification, conservation, and management of biodiversity.
ANNALS OF ANIMAL SCIENCE
(2023)
Article
Zoology
Chengqi Zhu, Xiaodong Xu, Ying Zhen
Summary: Two new species of the genus Pyrocoelia were described from Mt. Cenwanglaoshan of Guangxi, Southwest China. These new species were distinguished from other known species based on external morphological characters and male genitalia. In addition, the distribution of Pyrocoelia species in China was summarized.
Article
Cell Biology
Jia Shi, Yi Yang, Ya-Nan Wang, Qing Li, Xue Xing, An-Ying Cheng, Xiao-Na Zhan, Jie Li, Gang Xu, Fan He
Summary: This study reveals the association between metabolism and the progression of vascular calcification in chronic kidney disease (CKD). High phosphate and uremic serum enhance mitochondrial respiration capacity in vascular smooth muscle cells (VSMCs), while glycolysis level remains unchanged. Suppression of cytochrome c oxidase (COX) activity attenuates vascular calcification.
CELL DEATH & DISEASE
(2022)
Article
Biochemistry & Molecular Biology
Shriya Purohit, Partigya Sharma, Sachin Kothiyal, Upendra Singh, Prakash Nautiyal, Mahender Singh, Indrashis Bhattacharya
Summary: This study sequenced mitochondrial genes CO-I and Cyt b to elucidate the phylogenetic status of three species of the genus Schizothorax. The results suggest that the simultaneous use of two molecular markers along with morphometric data is a better strategy for the classification of Schizothoracinae species.
MOLECULAR BIOLOGY REPORTS
(2023)
Article
Multidisciplinary Sciences
Gizem Inak, Agnieszka Rybak-Wolf, Pawel Lisowski, Tancredi M. Pentimalli, Rene Juettner, Petar Glazar, Karan Uppal, Emanuela Bottani, Dario Brunetti, Christopher Secker, Annika Zink, David Meierhofer, Marie-Therese Henke, Monishita Dey, Ummi Ciptasari, Barbara Mlody, Tobias Hahn, Maria Berruezo-Llacuna, Nikos Karaiskos, Michela Di Virgilio, Johannes A. Mayr, Saskia B. Wortmann, Josef Priller, Michael Gotthardt, Dean P. Jones, Ertan Mayatepek, Werner Stenzel, Sebastian Diecke, Ralf Kuehn, Erich E. Wanker, Nikolaus Rajewsky, Markus Schuelke, Alessandro Prigione
Summary: Leigh syndrome (LS) is a severe neurometabolic disorder lacking effective models. This study found that LS carrying mutations in SURF1 gene exhibit impaired neuronal morphogenesis due to metabolic deficiencies.
NATURE COMMUNICATIONS
(2021)
Article
Biodiversity Conservation
Rodrigue Orobiyi Edeya Pelebe, Ibrahim Imorou Toko, Erik Verheyen, Maarten Van Steenberge
Summary: The study revealed that the population of Sarotherodon melanotheron in the Atchakpa reservoir may have resulted from a natural range extension within Benin. The subspecies S. m. melanotheron has also been previously introduced in the Philippines. Further research is necessary to investigate the socioeconomic, ecological, and environmental impacts of this species in the reservoir.
Article
Biotechnology & Applied Microbiology
Qian Tang, Q. Luo, Qian Duan, Lei Deng, Renyi Zhang
Summary: This study conducted in Guiyang, Guizhou Province, China, revealed the presence of commercial fraud in fish products, with a significant percentage of samples being inconsistent with their labels. The use of DNA barcoding was shown to be an effective tool for identifying mislabeled fish products and potentially enhancing transparency and fair trade in domestic fisheries.
JOURNAL OF FOOD PROTECTION
(2022)
Article
Food Science & Technology
Bo Liu, Jing-Wen Yang, Bao-Suo Liu, Nan Zhang, Liang Guo, Hua-Yang Guo, Dian-Chang Zhang
Summary: This study used DNA barcoding to identify fish species in Guangzhou supermarkets and sushi restaurants, and found that a significant proportion of the products were mislabeled or had insufficient information on the label, indicating a need for improved global regulation of fish product labeling.
JOURNAL OF FOOD SCIENCE
(2022)
Article
Fisheries
Magnus W. Jacobsen, Nana W. Jensen, Rasmus Nygaard, Kim Praebel, Bjarni Jonsson, Nynne Hjort Nielsen, Jose M. Pujolar, Dylan J. Fraser, Louis Bernatchez, Michael M. Hansen
Summary: This study analysed the mitochondrial genomes of different populations of Arctic char, revealing the phylogeographic relationships between different lineages and potential refugia and colonisation routes. The study found a secondary contact zone between Arctic and Atlantic evolutionary lineages in western Greenland, estimated the divergence time of lineages and the time of the most recent common ancestor, and suggested a complex history involving cryptic refugia or multiple recolonisations.
ECOLOGY OF FRESHWATER FISH
(2022)
Article
Biochemistry & Molecular Biology
Seth R. Smith, Eric Normandeau, Haig Djambazian, Pubudu M. Nawarathna, Pierre Berube, Andrew M. Muir, Jiannis Ragoussis, Chantelle M. Penney, Kim T. Scribner, Gordon Luikart, Chris C. Wilson, Louis Bernatchez
Summary: In this study, an annotated, chromosome-anchored genome assembly for Lake Trout was generated using various sequencing techniques, resulting in a highly contiguous assembly. Analysis revealed insights into homeologs resulting from a salmonid-specific autotetraploid event and homologous chromosomes in related taxa, providing valuable resources for future genomic research.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Ecology
Catherine R. M. Attard, Jonathan Sandoval-Castillo, Chris J. Brauer, Peter J. Unmack, David Schmarr, Louis Bernatchez, Luciano B. Beheregaray
Summary: This study investigates the persistence of adaptive variation in small populations of desert rainbowfish through population genomic diversity analysis and satellite-derived surface water data integration. The findings suggest that positive selection in refugial subpopulations combined with connectivity during flood periods can enable retention of adaptive diversity, allowing the species to persist in the desert environment.
Article
Ecology
Joshua M. Miller, Dany Garant, Charles Perrier, Tristan Juette, Joel W. Jameson, Eric Normandeau, Louis Bernatchez, Denis Reale
Summary: The island syndrome hypothesis predicts that island populations should differ from mainland populations, with individuals on islands being larger, less aggressive, more sociable, and investing more in their offspring. Using genome-wide SNP markers, this study found clear genomic differentiation between island and mainland populations, with moderate to high marker-based heritability estimates for traits thought to underlie the ISH. Further analysis identified 12 loci associated with differentiation between mainland and island populations, suggesting independent evolutionary trajectories and a genetic basis for the traits considered.
Editorial Material
Biochemistry & Molecular Biology
Yibo Hu, Louis Bernatchez
Article
Biochemistry & Molecular Biology
Quentin Rougemont, Amanda Xuereb, Xavier Dallaire, Jean-Sebastien Moore, Eric Normandeau, Eric B. Rondeau, Ruth E. Withler, Donald M. Van Doornik, Penelope A. Crane, Kerry A. Naish, John Carlos Garza, Terry D. Beacham, Ben F. Koop, Louis Bernatchez
Summary: This study investigated the genomic basis of local adaptation in Coho salmon across North America and found that migration distance is the primary selective factor. Several candidate genetic variations associated with long-distance migration and altitude were also identified.
Article
Ecology
Hugo Cayuela, Staffan Jacob, Nicolas Schtickzelle, Rik Verdonck, Herve Philippe, Martin Laporte, Michele Huet, Louis Bernatchez, Delphine Legrand
Summary: Phenotypic plasticity refers to the ability of one genotype to produce different phenotypes in different environments, and transgenerational plasticity allows the transmission of this environmentally-induced variation across generations. In this study, using a ciliate model-species, the researchers found that phenotypic traits related to dispersal are plastic and can be inherited over at least 35 generations. The fitness costs and benefits associated with these changes can also be passed on to further generations.
Article
Genetics & Heredity
Anne-Laure Ferchaud, Claire Merot, Eric Normandeau, Jiannis Ragoussis, Charles Babin, Haig Djambazian, Pierre Berube, Celine Audet, Margaret Treble, Wojciech Walkusz, Louis Bernatchez
Summary: A chromosome-level reference genome for Greenland Halibut was successfully assembled using single-molecule sequencing and chromatin conformation capture sequencing data. The study revealed that Greenland Halibut possesses a male heterogametic XY system for sex determination, similar to other teleost fishes, and identified several candidate genes potentially involved in this process. Additionally, the study suggested a putative Y-autosomal fusion may be associated with reduced recombination during the early steps of sex chromosome evolution in flatfishes.
G3-GENES GENOMES GENETICS
(2022)
Article
Biodiversity Conservation
M. Laporte, C. S. Berger, E. Garcia-Machado, G. Cote, O. Morissette, L. Bernatchez
Summary: The study found that the use of environmental DNA (eDNA) metabarcoding can accurately assess the composition and spatial distribution of freshwater fish communities. In a transplant experiment in the St. Lawrence River, the eDNA of brown trout was detected at five locations up to 5,000 meters from the cage, but only one sampling location downstream from the cage showed a significant impact on community composition. Cluster analysis confirmed the impact of the brown trout eDNA on community composition, separating this location from others. No evidence of transport effect of brown trout eDNA on fish community composition was observed in other sampling locations.
ECOLOGICAL INDICATORS
(2022)
Article
Ecology
William S. Beatty, Patrick R. Lemons, Jason P. Everett, Cara J. Lewis, Rebecca L. Taylor, Robert J. Lynn, Suresh A. Sethi, Lori Quakenbush, John J. Citta, Michelle L. Kissling, Natalia Kryukova, John K. Wenburg
Summary: Arctic marine ecosystems are undergoing rapid physical and biological changes due to climate warming and loss of sea ice. This study focuses on the Pacific walrus and estimates its demographic parameters, including survival and abundance, using a genetic mark-recapture model. The results suggest a decline in Pacific walrus abundance in the future, but the magnitude of this decline remains uncertain. These demographic estimates provide crucial information for evaluating the population trends of this important subsistence resource.
MARINE ECOLOGY PROGRESS SERIES
(2022)
Article
Environmental Sciences
Chris J. Brauer, Jonathan Sandoval-Castillo, Katie Gates, Michael P. Hammer, Peter J. Unmack, Louis Bernatchez, Luciano B. Beheregaray
Summary: Under climate change, species without the ability to shift their range rely on genetic variation for adaptation. Genomic vulnerability studies often overlook hybridization as a source of adaptive variation. This study found that hybrid populations of rainbowfish showed reduced vulnerability to climate change compared to pure narrow endemics, highlighting the importance of hybrid populations and adaptive introgression in the evolutionary rescue of species with narrow environmental ranges.
NATURE CLIMATE CHANGE
(2023)
Article
Ecology
Florent Sylvestre, Claire Merot, Eric Normandeau, Louis Bernatchez
Summary: Differences between sexes in trait fitness optima can contribute to genetic diversity through balancing selection, but detecting such conflicts is challenging. Recent studies have found that duplications on sexual chromosomes can create misleading signals of intralocus sexual conflicts. In this study, we investigated intralocus sexual conflicts in three-spined sticklebacks and found only two regions that showed potential conflicts and signals of balancing selection. These results suggest that most intralocus sexual conflicts are transient and do not drive long-term balancing selection.
Article
Parasitology
Chloe Suzanne Berger, Berenice Bougas, Guillaume Cote, Jean-Francois Dumont, Louis Bernatchez
Summary: The ability to systematically detect parasitic infection, even without visible signs, is crucial for accurate conservation policies. In particular, the nematode Anguillicola crassus poses a potential threat to eel populations. The authors present a real-time PCR-based method to detect A. crassus infection in both final and intermediate hosts. By using this method, they were able to detect the DNA of A. crassus in both zooplankton and individual swim bladders. This method allows for early detection of A. crassus infection in nature, going beyond previous protocols.
PARASITOLOGY RESEARCH
(2023)
Review
Genetics & Heredity
Louis Bernatchez, Anne-Laure Ferchaud, Chloe Suzanne Berger, Clare J. Venney, Amanda Xuereb
Summary: With global climate change causing drastic changes in environmental conditions, it is crucial to understand how organisms respond and adapt to these changes. Recent advancements in genomic, transcriptomic, and epigenomic technologies provide unprecedented insights into the evolutionary processes and molecular mechanisms of adaptation. This review summarizes the methods that utilize omics tools to investigate, monitor, and predict the responses of species and communities to global climate change, highlighting the need for holistic, multi-omics approaches.
NATURE REVIEWS GENETICS
(2023)
Article
Biology
Swantje Enge, Claire Merot, Raimondas Mozuraitis, Violeta Apsegaite, Louis Bernatchez, Gerrit A. Martens, Sandra Radziute, Henrik Pavia, Emma L. Berdan
Summary: In this study, researchers found that a overdominant supergene in seaweed flies strongly modulates male traits but only weakly affects female traits. Gas chromatography-electroantennographic detection revealed that females can sense male traits and there may be differential perception between genotypes. Gene expression analysis showed that candidate genes for trait biosynthesis primarily showed differential expression in males, while odorant detection genes were differentially expressed in both sexes but showed high levels of divergence between supergene haplotypes. The reduced recombination between supergene haplotypes may have led to rapid divergence in mate preferences and increasing linkage between male traits and overdominant loci, helping to maintain the polymorphism despite deleterious effects in homozygotes.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2023)