Article
Fisheries
Patricia Oliveira Maciel, Elizabeth Gusmao Affonso
Summary: The study investigated the effects of Praziquantel on the hematological parameters of tambaqui and its efficacy against monogeneans, finding lower concentrations of PZQ to be more effective against specific parasites. The use of ethanol as a solvent did not significantly impact the physiology of tambaqui.
AQUACULTURE INTERNATIONAL
(2021)
Article
Biochemistry & Molecular Biology
M. Benovics, J. Vukic, R. Sanda, F. Nejat, E. A. Charmpila, I Buj, S. Shumka, S. Porcelloti, S. A. Tarkan, S. Aksu, O. Emiroglu, A. Simkova
Summary: Host-parasite coevolution is fundamental in evolutionary biology. Monogenea and their cyprinoid fish hosts provide a model for studying host-parasite evolutionary relationships. In the Dactylogyrus-Squalius system, the phylogenetic reconstruction revealed polyphyletic origin and different patterns of host specificity for Dactylogyrus species parasitizing Squalius. The overall cophylogenetic structure was not significant, but host-parasite links among Iberian endemic species contributed significantly to the structure. D. folkmanovae and D. vistulae showed contrasting cophylogenetic patterns, reflecting different mechanisms of dispersion and morphological adaptations to Squalius hosts.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2023)
Article
Fisheries
Carlos Daniel Pinacho-Pinacho, Jesus Sanchez-Angeles, Emilio Martinez-Ramirez, Miguel Calixto-Rojas, Miguel Rubio-Godoy
Summary: In this study, the prevalence of monogenean parasites in rustic fish farms and feral tilapia in Oaxaca, Mexico was assessed. Molecular data was used to confirm the identity of the parasites and track their introduction and ecological impact. The study found four African monogeneans infecting farmed and feral tilapia, indicating a potential spill-over of parasites from fish farms to native fishes.
Article
Plant Sciences
Jie Tang, Dan Yao, Huizhen Zhou, Lianming Du, Maurycy Daroch
Summary: This study reevaluated 80 Synechococcus-like strains, identifying 54 strains as Parasynechococcus-like strains with significant intragenus genetic divergence. Bioinformatics analysis revealed diversified distribution and abundance of microsatellites and compound microsatellites in genomes of these strains.
Review
Biodiversity Conservation
Beric M. Gilbert, Annemarie Avenant-Oldewage
Summary: Meta-analysis of 57 studies on Monogenea parasites revealed strong negative effects of metals and strong positive effects of eutrophication on these parasites. Other contaminant types had weak effects on Monogenea. Different families of Monogeneans showed varying effect sizes when exposed to pollutants. Further exploration of physiological effects and adaptation mechanisms of Monogenea to environmental changes is warranted.
ECOLOGICAL INDICATORS
(2021)
Article
Limnology
Genevieve J. Parent, Stephane Plourde, Howard Browman, Julie Turgeon, Adam Petrusek
Summary: This article argues that the lack of evidence for hybridization between C. finmarchicus and C. glacialis may be due to an inappropriate selection of reference samples and genetic markers. By reviewing genetic classification terms and techniques, the authors suggest that careful consideration of reference samples is crucial in studying potential hybridization in marine species. Additionally, contrasting methods used by different studies highlights the importance of developing markers that can accurately distinguish between hybrid and parental genotypes.
LIMNOLOGY AND OCEANOGRAPHY
(2021)
Article
Biology
Dan Yao, Lei Cheng, Lianming Du, Meijin Li, Maurycy Daroch, Jie Tang
Summary: Microsatellites (SSRs) and compound microsatellites (CSSRs) in Leptolyngbya-like strains showed diverse patterns of distribution, abundance, density, and diversity in genomes. The numbers of SSRs and CSSRs were unevenly distributed and correlated with genome size and GC content, with differences in distribution patterns among phylogenetic groups. These microsatellites were predominantly located in coding regions, with unique motifs identified in CSSRs in multiple genomes.
Article
Fisheries
Marieta Nascimento de Queiroz, Zelina Estevam dos Santos Torres, Adrian Martin Pohlit, Eduardo Akifumi Ono, Elizabeth Gusmao Affonso
Summary: Piper aduncum, a native plant of the Amazon, has important medicinal properties and can be a sustainable source for pharmaceutical industry. This study found that the ethanol extract of this plant is effective in controlling monogeneans in Colossoma macropomum without compromising fish health and survival.
Article
Parasitology
Lucie Seidlova, Michal Benovics, Andrea Simkova
Summary: This article explores the coevolution of host-parasite interactions and the species diversity of parasites in cichlid fish. The study finds that the parasite fauna of cichlids in Neotropical America is still poorly explored. Phylogenetic analyses of the parasites reveal a significant coevolutionary signal in the host-parasite system.
INTERNATIONAL JOURNAL FOR PARASITOLOGY
(2022)
Article
Zoology
Andrea Valigurova, Nadezda Vaskovicova, Milan Gelnar, Magdalena Kovacikova, Iveta Hodova
Summary: This study provides a comprehensive microscopic analysis of the morphofunctional adaptations in diplozoid monogeneans, showcasing the benefits of using different microscopic techniques to reveal hidden differences, even in extensively studied model organisms like E. nipponicum. The study highlights specific adaptations that have evolved in diplozoid monogeneans to confront their fish host, demonstrating the effectiveness of combining various microscopy methods to gain new insights into these parasitic organisms.
Article
Plant Sciences
Trinity P. Hamm, Sarah L. Boggess, Jinita Sthapit Kandel, Margaret E. Staton, Matthew L. Huff, Denita Hadziabdic, DeWayne Shoemaker, John J. Adamczyk, Marcin Nowicki, Robert N. Trigiano
Summary: In this study, 20 genomic simple sequence repeat (gSSR) markers were developed using low coverage whole-genome sequencing data of Weigela Spilled Wine. These markers were able to effectively identify different cultivated varieties of Weigela. Furthermore, they have potential applications in breeding through marker-assisted selection, determining hybridization history, constructing genetic maps, and assessing population genetic structure.
Article
Forestry
Angelina Nunziata, Filippo Ferlito, Anna Magri, Elvira Ferrara, Milena Petriccione
Summary: This study explored the genetic uniformity and value of the Hundred Horses Chestnut as a model plant. The results confirmed the age of the tree and its origin from the radial fragmentation of a main trunk. The genetic fingerprint obtained can be used to track the clones of the tree worldwide.
Article
Forestry
Giorgia Carletti, Luigi Cattivelli, Lorenzo Vietto, Giuseppe Nervo
Summary: SalixL. (willow) is the largest genus in the Salicaceae family, playing a significant role in riparian habitats, wetlands, and shrub tundra. A set of six SSR markers has been successfully identified to distinguish S. alba from other Salix species, making them valuable genetic resources for forestry research and breeding programs.
JOURNAL OF FORESTRY RESEARCH
(2021)
Article
Agronomy
Zsuzsanna Gyorgy, Sameena Alam, Priyanka Priyanka, Eva Zamborine Nemeth
Summary: This study assessed the genetic diversity of 58 opium poppy accessions using SSR markers. The findings showed low genetic diversity among the opium poppy accessions, and the markers were unable to distinguish genotypes based on geographical origin or seed color. However, grouping based on alkaloid content and petal color was observed.
Article
Multidisciplinary Sciences
Arturo Becerra, Israel Munoz-Velasco, Abelardo Aguilar-Camara, Wolfgang Cottom-Salas, Adrian Cruz-Gonzalez, Alberto Vazquez-Salazar, Ricardo Hernandez-Morales, Rodrigo Jacome, Jose Alberto Campillo-Balderas, Antonio Lazcano
Summary: Low complexity regions (LCRs) are protein sequences formed by compositionally biased residues. Four extremely conserved LCRs were found in the spike protein of several SARS-CoV-2 variants. These LCRs, especially in the Delta variant, may play a role in the rapid spread of the virus.
SCIENTIFIC REPORTS
(2022)
Editorial Material
Biodiversity Conservation
Cock van Oosterhout
CONSERVATION LETTERS
(2021)
Article
Genetics & Heredity
Swapnil Tichkule, Aaron R. Jex, Cock van Oosterhout, Anna Rosa Sannella, Ralf Krumkamp, Cassandra Aldrich, Oumou Maiga-Ascofare, Denise Dekker, Maike Lamshoeft, Joyce Mbwana, Njari Rakotozandrindrainy, Steffen Borrmann, Thorsten Thye, Kathrin Schuldt, Doris Winter, Peter G. Kremsner, Kwabena Oppong, Prince Manouana, Mirabeau Mbong, Samwel Gesase, Daniel T. R. Minja, Ivo Mueller, Melanie Bahlo, Johanna Nader, Jurgen May, Raphael Rakotozandrindrain, Ayola Akim Adegnika, John P. A. Lusingu, John Amuasi, Daniel Eibach, Simone Mario Caccio
Summary: Cryptosporidiosis is a significant issue in African children, impacting mortality, nutrition, and growth. The dominant pathogen, Cryptosporidium hominis, exhibits complex distribution of subtypes in Africa. Whole-genome analysis of 26 isolates revealed a metapopulation structure, with local transmission driving spread and evidence of hybridization between geographic lineages. Genes with high nucleotide diversity, encoding extracellular proteins and signal peptides, show signs of positive or balancing selection.
MICROBIAL GENOMICS
(2021)
Article
Engineering, Civil
Valentine Muhawenimana, Catherine A. M. E. Wilson, Jelena Nefjodova, Jo Cable
Summary: This study investigated the backwater effects of different leaky barrier designs in a laboratory flume, finding that the cross-sectional blockage ratio is the primary factor affecting area afflux. Non-porous leaky barriers exhibited higher head loss and drag coefficients compared to porous barriers, resulting in at least twice the area afflux.
JOURNAL OF HYDROLOGY
(2021)
Article
Ecology
Xuewei Mao, Jianwei Chen, Cock van Oosterhout, Huan Zhang, Guangxing Liu, Yunyun Zhuang, Thomas Mock
Summary: The study found that cyanases play an important role in nitrogen metabolism in marine microbial communities, facilitating the assimilation and nitrification processes of organic nitrogen. Horizontal gene transfer of cynS appears to be more prominent than previously reported.
Article
Biochemistry & Molecular Biology
Flavia Rogerio, Cock Van Oosterhout, Maisa Ciampi-Guillardi, Fernando Henrique Correr, Guilherme Kenichi Hosaka, Sandrine Cros-Arteil, Gabriel Rodrigues Alves Margarido, Nelson S. Massola Junior, Pierre Gladieux
Summary: Invasions by fungal plant pathogens pose a significant threat to agricultural ecosystems. Through population genomics study of Colletotrichum truncatum, a polyphagous and invasive pathogen of soybean in Brazil, it was found that the pathogen is subdivided into three phylogenetically distinct lineages that exchange genetic variation through hybridization. Introgressed regions, which comprise secreted protein-encoding genes, may be the targets of co-evolutionary selection. Population genomic studies can help identify high-risk geographical areas and pathogens, providing valuable information for future crop protection strategies.
Review
Genetics & Heredity
Giorgio Bertorelle, Francesca Raffini, Mirte Bosse, Chiara Bortoluzzi, Alessio Iannucci, Emiliano Trucchi, Hernan E. Morales, Cock van Oosterhout
Summary: Genetic variation, generated by mutation, recombination, and gene flow, can reduce the average fitness of a population. This genetic load can be estimated using various approaches, such as genome sequencing and computational techniques. Splitting the genetic load into realized load and masked load can improve our understanding of deleterious mutations in population genetics.
NATURE REVIEWS GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Swapnil Tichkule, Simone M. Caccio, Guy Robinson, Rachel M. Chalmers, Ivo Mueller, Samantha J. Emery-Corbin, Daniel Eibach, Kevin M. Tyler, Cock van Oosterhout, Aaron R. Jex
Summary: This study presents a whole-genome study of Cryptosporidium hominis, a major cause of diarrhea in low- and middle-income countries. The study identifies two distinct lineages of C. hominis, with one lineage predominantly found in low-income countries in Africa and Asia, and another lineage found in high-income countries in Europe, North America, and Oceania. The study also detects genomic regions of introgression between the lineages, leading to high diversity and divergence in potential virulence genes.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Giulia Corsi, Swapnil Tichkule, Anna Rosa Sannella, Paolo Vatta, Francesco Asnicar, Nicola Segata, Aaron R. Jex, Cock van Oosterhout, Simone M. Caccio
Summary: This study compares whole genome sequences of Cryptosporidium parvum isolates from human and ruminant hosts collected from different regions globally. It finds evidence of genetic exchanges between different host species and geographic origins, with these exchanges potentially increasing the parasite's virulence. The study suggests that globalization and close human-animal contacts provide opportunities for genetic exchanges between previously isolated parasite lineages, which can impact host-parasite coevolution dynamics.
Article
Ecology
Naihao Ye, Wentao Han, Andrew Toseland, Yitao Wang, Xiao Fan, Dong Xu, Cock van Oosterhout, Igor Grigoriev, Alessandro Tagliabue, Jian Zhang, Yan Zhang, Jian Ma, Huan Qiu, Youxun Li, Xiaowen Zhang, Thomas Mock
Summary: This study reveals that polar microalgae have a higher demand for zinc due to elevated cellular levels of zinc-binding proteins. Zinc plays an important role in supporting photosynthetic growth in eukaryotic polar phytoplankton, which is critical for algal colonization of low-temperature polar oceans.
NATURE ECOLOGY & EVOLUTION
(2022)
Editorial Material
Oncology
Cock van Oosterhout, Daniel Marcu, Simone Immler
Summary: This article discusses the significant impact of genetic load on assisted reproductive technology, human reproduction, and fertility. It explores these topics in the context of evolutionary genetic theory, the technological revolution in ART, and the advancements in genomics and bioinformatics.
CLINICAL AND TRANSLATIONAL MEDICINE
(2022)
Article
Immunology
Fernando Hayashi Sant'Anna, Tiago Andreis, Richard Steiner Salvato, Ana Paula Muterle Varela, Juliana Comerlato, Tatiana Schaffer Gregianini, Regina Bones Barcellos, Fernanda Marques de Souza Godinho, Paola Cristina Resende, Gabriel da Luz Wallau, Thais Regina Y. Castro, Bruna Campestrini Casarin, Andressa de Almeida Vieira, Alexandre Vargas Schwarzbold, Priscila de Arruda Trindade, Gabriela Luchiari Tumioto Giannini, Luana Freese, Giovana Bristot, Carolina Serpa Brasil, Bruna de Oliveira Rocha, Paloma Bortolini Martins, Francine Hehn de Oliveira, Cock van Oosterhout, Eliana Wendland
Summary: With the coexistence of multiple lineages and increased international travel, recombination and gene flow are likely to play an increasingly important role in the adaptive evolution of SARS-CoV-2. This study presents the first identified case of SARS-CoV-2 Deltacron recombinant in Brazil, indicating the emergence of a new strain after a recombination event between lineages in South Brazil. The discovery of this and other Deltacron recombinant lineages highlights the need for continued genomic surveillance during the COVID-19 pandemic.
Review
Ecology
Nicolas Dussex, Hernan E. Morales, Christine Grossen, Love Dalen, Cock van Oosterhout
Summary: Advances in genome sequencing and computational approaches have greatly improved our ability to assess the threat posed by the genetic load to small and declining populations. However, confusion remains regarding the definitions of genetic load and its dynamics, and their impact on individual fitness and population viability. This study demonstrates the effects of both selective purging and drift on the distribution of deleterious mutations during population decline and recovery, and how this impacts the genetic load composition, extinction risk, and recovery potential of populations. The authors propose a framework for studying load dynamics and advocate for the use of load estimates in the management of endangered populations.
TRENDS IN ECOLOGY & EVOLUTION
(2023)
Article
Biology
Menno J. de Jong, Cock van Oosterhout, A. Rus Hoelzel, Axel Janke
Summary: Half a century after its foundation, the neutral theory of molecular evolution remains controversial due to different interpretations of the neutral mutation-random drift hypothesis. This review traces the origins of these ambiguities and suggests potential solutions, highlighting the differences between the original, revised, and nearly neutral hypotheses. It also discusses the implications for evolutionary biology beyond molecular evolution and evaluates the validity of neutralist and selectionist arguments.
BIOLOGICAL REVIEWS
(2023)
Article
Biology
Thomas C. C. Mathers, Roland H. M. Wouters, Sam T. T. Mugford, Roberto Biello, Cock van Oosterhout, Saskia A. A. Hogenhout
Summary: The English and Indian grain aphids belong to a cryptic species complex with highly differentiated lineages. Hybridization has significantly contributed to grain aphid diversity, increasing the evolutionary potential of this important pest species.
Article
Biochemistry & Molecular Biology
Georgette Femerling, Cock van Oosterhout, Shaohong Feng, Rachel M. Bristol, Guojie Zhang, Jim Groombridge, M. Thomas P. Gilbert, Hernan E. Morales
Summary: The Seychelles paradise flycatcher is a species that narrowly avoided extinction and recovered its population size, but experienced a loss of genetic diversity. The reduction in genetic diversity may compromise the species' ability to adapt to environmental change. Therefore, considering genomic erosion and computer modeling is crucial in conservation assessments.
MOLECULAR BIOLOGY AND EVOLUTION
(2023)
