Article
Agronomy
Christophe Montagnon, Faris Sheibani, Tadesse Benti, Darrin Daniel, Adugna Debela Bote
Summary: The genetic diversity of Coffea arabica in Ethiopia, Yemen, and Hararghe region was studied using genetic markers. The study identified different clusters within the species, including Ethiopian Legacy, Typica/Bourbon, New-Yemen, and Harrar clusters. Ethiopian Legacy and Typica/Bourbon clusters are the sources of cultivated coffee varieties worldwide. The implications for breeding strategies are discussed.
Article
Multidisciplinary Sciences
Marianne Bauer, Mariela D. Petkova, Thomas Gregor, Eric F. Wieschaus, William Bialek
Summary: In gene expression regulation, the concentration of transcription factor molecules represents information relevant to the organism, but there are physical limits to the precision of these measurements. Lower thresholds are more important for thresholded measurements, and fine tuning is not necessary for near-optimal information transmission. Information theoretic approach can help identify the optimal sensor for the entire gap gene network.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Marine & Freshwater Biology
Dilruba Seyhan-Ozturk, Semih Engin
Summary: The study investigated the demographic histories, genetic relationships, and population structure of the sedentary fish Pomatoschistus marmoratus from the north-eastern basin of the Mediterranean Sea. Genetic analysis revealed stable populations in the Black Sea and Sea of Marmara, whereas the Levantine population experienced sudden demographic expansion after a population bottleneck. Limited gene flow and differentiation between the Levantine population and others were attributed to larval transport and surface currents in the sub-basins.
JOURNAL OF THE MARINE BIOLOGICAL ASSOCIATION OF THE UNITED KINGDOM
(2021)
Article
Agriculture, Dairy & Animal Science
Kang-Rae Kim, Sang Ki Kim, Mu-Sung Sung, Jeong-Nam Yu
Summary: This study investigated the genetic diversity and structure of the Korean endemic aucha perch (Coreoperca herzi) using mitochondrial DNA data. The results showed significant genetic differentiation among different water systems and confirmed the origin of a translocated population. This study provides basic data for the conservation of C. herzi.
Article
Biodiversity Conservation
Zachary L. Robinson, Donovan A. Bell, Tashi Dhendup, Gordon Luikart, Andrew R. Whiteley, Marty Kardos
Summary: Augmenting gene flow is crucial for the conservation of isolated populations, but careful evaluation and monitoring are necessary. Common assessment methods may have limitations in detecting genetic rescue effects, highlighting the need for comprehensive monitoring information to improve reliability.
CONSERVATION BIOLOGY
(2021)
Article
Ecology
Yuan Li, Liyan Zhang, Puqing Song, Binbin Shan, Longshan Lin
Summary: Research on Gymnothorax minor in China reveals a high level of genetic diversity with no differentiation between populations, suggesting potential for panmixia. The species experienced a population expansion event during the late Pleistocene and has a prolonged pelagic larval duration, promoting genetic diversity.
REGIONAL STUDIES IN MARINE SCIENCE
(2021)
Article
Plant Sciences
Qi Wu, Shang Dong, Yuxin Zhao, Lei Yang, Xiujin Qi, Zhihe Ren, Shubin Dong, Jin Cheng
Summary: The genetic diversity and structure of C. macranthos populations in northern China are influenced by biological characteristics, human interference, habitat fragmentation, and restricted gene flow. The results of this study can provide a basis for proposing conservation strategies.
Article
Multidisciplinary Sciences
Sogo Nishio, Norio Takada, Shingo Terakami, Yukie Takeuchi, Megumi K. Kimura, Keiya Isoda, Toshihiro Saito, Hiroyuki Iketani
Summary: The genetic structure of Japanese chestnut is influenced by gene flow from cultivated varieties, with wild individuals mainly classified based on geographic distribution. Presumed parent-offspring relationships were found between cultivars and wild individuals, indicating genetic interaction between the two populations.
SCIENTIFIC REPORTS
(2021)
Article
Veterinary Sciences
Fangyuan Yin, Chuanjiang Guo, Zhuojia Tian, Dong Li, Daoe Mu, Haoting Liu, Guiquan Guan, Hong Yin, Facai Li
Summary: Babesia gibsoni is a tick-borne protozoan causing canine babesiosis. Genetic variation of B. gibsoni population was examined to understand disease transmission and develop control strategies. Results showed high genetic diversity within populations and significant differentiation across continents.
FRONTIERS IN VETERINARY SCIENCE
(2023)
Article
Biodiversity Conservation
Xue Zhang, Liu Yang, Yuan-Huan Liu, Xiong-Li Zhou, Li-Qin Zhang, Yue-Hua Wang, Shi-Kang Shen
Summary: The study revealed that Cinnamomum chago has low genetic diversity, significant genetic structure, apparent inbreeding, low gene flow, and experienced bottleneck events in ancient populations.
GLOBAL ECOLOGY AND CONSERVATION
(2021)
Review
Biodiversity Conservation
Jaclyn Harris, David G. Chapple, Claire A. McLean, Jane Melville
Summary: Globally, fire regimes are changing due to human activities and climate change, with impacts on faunal genetic patterns at individual, population and meta-population scales. Fire regimes can shape natural selection, survival and repopulation strategies, and dispersal patterns of fauna. Anthropogenic interference in fire regimes and changes in the characteristics of fire regimes may also have genetic consequences. This review highlights the importance of integrating genetic research into fire ecology for informed management decisions.
BIOLOGICAL CONSERVATION
(2023)
Article
Entomology
Sarah Petermann, Sabine Otto, Gerrit Eichner, Marc F. Schetelig
Summary: The study found that the SWD populations in Germany are highly homogeneous, without differences between populations or years, indicating good adaptation and minimal external invasions. However, the high genetic variability and migration between populations could lead to a rapid establishment of the pest species.
JOURNAL OF PEST SCIENCE
(2021)
Article
Plant Sciences
Tam Minh Nguyen, Duy Dinh Vu, Hien Phan Dang, Xuan Thi Tuyet Bui, Hong Phan Lan Nguyen, Duc Minh Nguyen
Summary: Moderate levels of genetic diversity and differentiation were found in Anisoptera costata. Population divergence during the Younger Dryas was detected. The anthropogenic disturbance significantly impacted the genetic diversity of the species in low tropical forests.
Article
Ecology
Artemis D. Treindl, Jessica Stapley, Adrian Leuchtmann
Summary: Understanding the genetic processes driving the evolution of plant pathogens is crucial for both plant pathologists and evolutionary biologists. This study focused on the genetic structure of pathogen populations infecting wild plants in natural ecosystems, rather than agricultural systems. The researchers collected samples of two pathogenic Epichloe species occurring sympatrically on different host grasses in Europe and analyzed their genetic diversity and population structure. They found that geographically separated populations formed genetically distinct groups for both species, but the separation was less distinct in one species compared to the other. The researchers also observed different patterns of population admixture and genetic differentiation between the two species, suggesting potential differences in dispersal abilities and gene flow. The study provides insights into the evolutionary contexts of these fungal pathogens and their co-evolutionary dynamics.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2023)
Article
Biochemistry & Molecular Biology
Tarang K. Mehta, Luca Penso-Dolfin, Will Nash, Sushmita Roy, Federica Di-Palma, Wilfried Haerty
Summary: The divergence of regulatory regions and gene regulatory network (GRN) rewiring is an important driver of cichlid phenotypic diversity. This study links miRNA-binding site turnover to GRN evolution across cichlids and identifies species-specific networks associated with cichlid phenotypic traits. The findings suggest that positive selection acting upon discrete mutations in regulatory regions plays a role in rewiring GRNs in rapidly radiating cichlids.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Microbiology
Negash Kabtimer Bereded, Manuel Curto, Konrad J. Domig, Getachew Beneberu Abebe, Solomon Workneh Fanta, Herwig Waidbacher, Harald Meimberg
Article
Plant Sciences
Luke R. Tembrock, Mark P. Simmons, Christopher M. Richards, Patrick A. Reeves, Ann Reilley, Manuel A. Curto, Harald Meimberg, Grace Ngugi, Sebsebe Demissew, Abdul Wali Al-Khulaidi, Mansoor Al-Thobhani, Sheron Simpson, Daniel M. Varisco
Article
Engineering, Environmental
Papius Dias Tibihika, Tom Okurut, Jerome Sebadduka Lugumira, Christine Akello, George Muganga, John Baptist Tumuhairwe, Mike Nsereko, Dan Kiguli, Richard Mugambwa
Summary: The study in Uganda found that municipal fresh solid wastes were mainly composed of biodegradable organic matter, highlighting the potential of composting as a viable organic waste management strategy in the country to generate sufficient organic manure for agriculture, contributing to enhanced carbon sequestration to reduce greenhouse gas emissions.
JOURNAL OF THE AIR & WASTE MANAGEMENT ASSOCIATION
(2021)
Article
Biology
Negash Kabtimer Bereded, Getachew Beneberu Abebe, Solomon Workneh Fanta, Manuel Curto, Herwig Waidbacher, Harald Meimberg, Konrad J. Domig
Summary: The gut microbiota of fishes play a crucial role in various aspects of their biology and is affected by environmental factors. This study in Ethiopia analyzed the gut microbiota of Nile Tilapia from Lake Tana and an aquaculture center, showing significant differences in composition and diversity influenced by sampling season and catching site. Further research is needed to understand the underlying causes of these changes and their impact on the health and growth of Nile tilapia under different conditions.
Article
Fisheries
John Kariuki, Papius Dias Tibihika, Manuel Curto, Esayas Alemayehu, Gerold Winkler, Harald Meimberg
Summary: The introduction of Nile tilapia may negatively impact native fish stocks, emphasizing the importance of delineating species boundaries. Microsatellite genotyping by amplicon sequencing is an effective tool for species delimitation and studying genetic diversity.
Article
Multidisciplinary Sciences
Wilfried Woeber, Manuel Curto, Papius Tibihika, Paul Meulenbroek, Esayas Alemayehu, Lars Mehnen, Harald Meimberg, Peter Sykacek
Summary: The study uses machine learning methods to analyze images of Nile tilapia populations, finding that deep learning outperforms traditional morphometric analysis in predictive performance. However, a novel significance test reveals that the improvement is aided by non-biological artifacts. More interpretable results are obtained through a Bayesian approach, identifying habitat-dependent body features of Nile tilapia. The automatically inferred body features corroborate and expand the results of a landmark-based analysis, showing that Nile tilapia exhibit habitat-specific morphotypes and that machine learning analysis allows for the inference of novel biological knowledge.
Review
Plant Sciences
Ben Belden Mugula, Samuel Kuria Kiboi, James Ireri Kanya, Anthony Egeru, Paul Okullo, Manuel Curto, Harald Meimberg
Summary: The increasing demand for ornamental, cosmetic, and pharmaceutical products has led to the exploitation of plant species globally, with African Sandalwood facing the risk of endangerment in Sub-Saharan Africa. The species poses taxonomic challenges and population decline, highlighting the need for further research and conservation efforts in the region.
Article
Microbiology
Negash Kabtimer Bereded, Getachew Beneberu Abebe, Solomon Workneh Fanta, Manuel Curto, Herwig Waidbacher, Harald Meimberg, Konrad J. Domig
Summary: This study examined the variations in the gut microbiota of Nile tilapia across an altitudinal gradient in Ethiopia. The results showed that altitude can modulate the composition and diversity of the gut microbiota in Nile tilapia. Some shared bacterial communities were also detected.
Article
Chemistry, Multidisciplinary
Wilfried Woeber, Lars Mehnen, Manuel Curto, Papius Dias Tibihika, Genanaw Tesfaye, Harald Meimberg
Summary: This study compares the explanatory power of unsupervised machine learning models to traditional landmark-based approaches for population structure investigation. The findings show that unsupervised machine learning can obtain biologically meaningful results and reveal latent population clusters.
APPLIED SCIENCES-BASEL
(2022)
Review
Zoology
Papius Dias Tibihika, Harald Meimberg, Manuel Curto
Summary: The Nile tilapia is the second-most economically important fish species in East Africa, but its introduction has had negative impacts on the local fish biodiversity. Hybridization and gene flow pose threats to the sustainability and genetic resources of Nile tilapia.
Article
Biodiversity Conservation
S. Nogueira, M. Curto, C. Gkenas, F. Afonso, D. Dias, J. Heumueller, P. M. Felix, R. F. de Lima, P. Chainho, A. C. Brito, F. Ribeiro
Summary: The invasive Mozambique tilapia primarily feeds on phytoplankton and shows limited predation on other fish species. However, the high densities of tilapia may impact basal trophic levels and nutrient availability, potentially leading to resource competition with native species.
BIOLOGICAL INVASIONS
(2023)
Article
Ecology
L. Baptista, H. Meimberg, S. P. Avila, A. M. Santos, M. Curto
Summary: The study of the rissoid Cingula trifasciata in the Northeast Atlantic Ocean revealed differentiation between insular and continental populations, with potential cryptic diversity. Factors such as dispersal ability, habitat type, and oceanographic currents were found to shape the population structure of C. trifasciata in the remote Azores Archipelago. The study highlights the complexity of gene flow in marine invertebrates and suggests the potential for further research using SSR-GBAS in non-model species.
BMC ECOLOGY AND EVOLUTION
(2021)
Article
Ecology
Genanaw Tesfaye, Manuel Curto, Paul Meulenbroek, Gernot K. Englmaier, Papius Dias Tibihika, Esayas Alemayehu, Abebe Getahun, Harald Meimberg
Summary: The study revealed that Nile tilapia populations in Ethiopia are structured into three main clusters influenced by biogeographic factors or stocking activities. High F-ST values between populations suggest a high level of genetic differentiation, even within the same drainage systems. Natural populations in the Omo-Turkana system and lakes in the Main Ethiopian Rift showed the highest genetic variability, while lower variability was found in stocked populations in lakes Hora, Hashenge, and Hayq.
BMC ECOLOGY AND EVOLUTION
(2021)
Correction
Ecology
Julia Lanner, Fabian Gstoettenmayer, Manuel Curto, Benoit Geslin, Katharina Huchler, Michael C. Orr, Barbel Pachinger, Claudio Sedivy, Harald Meimberg
Summary: The paper has been amended and can be accessed through the original article.
BMC ECOLOGY AND EVOLUTION
(2021)
Article
Ecology
Julia Lanner, Fabian Gstoettenmayer, Manuel Curto, Benoit Geslin, Katharina Huchler, Michael C. Orr, Barbel Pachinger, Claudio Sedivy, Harald Meimberg
Summary: This study used Illumina sequencing to genotype codominant markers and investigate the history of invasion and connectivity between populations across the European invasion axis. Distinctive genetic clusters with east-west differentiations were detected in Middle-Europe, suggesting multiple, independent introductions of the species to the European continent.
BMC ECOLOGY AND EVOLUTION
(2021)