Editorial Material
Multidisciplinary Sciences
Ludovic Orlando
Summary: An extensive genomic time series has been conducted on 356 humans from ice-age Europe, showing the impact of climate change on the migration patterns and cultural development of hunter-gatherer populations.
Editorial Material
Agriculture, Dairy & Animal Science
J. Kor Oldenbroek
Summary: The conservation of genetic diversity is a costly process, but genomic information is now essential for making choices in conservation. Genomics can accurately measure genetic distances and detect valuable rare alleles and haplotypes, aiding in the conservation of genomic regions.
Article
Biochemistry & Molecular Biology
Paula E. Adams, Anna B. Crist, Ellen M. Young, John H. Willis, Patrick C. Phillips, Janna L. Fierst
Summary: The outcrossing species C. remanei can recover from inbreeding, but the recovery is limited by the presence of a large number of segregating deleterious variants in natural populations.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Review
Plant Sciences
Jakob Petereit, Jacob Marsh, Philipp E. Bayer, Monica F. Danilevicz, William J. W. Thomas, Jacqueline Batley, David Edwards
Summary: Soybean, a legume of economic and nutritional value, has seen increasing yields due to the breeding of improved varieties and the application of genetic and genomic approaches. With advancements in genome technologies, studying variations between individuals and populations has become more accessible. The development of soybean pangenomes has revealed significant structural variations between individuals and provided valuable information for breeding improved cultivars.
Editorial Material
Multidisciplinary Sciences
Conrad O. Iyegbe, Paul F. O'Reilly
Summary: Rare and common genetic variants associated with schizophrenia provide convergent clues about the underlying biology of this complex disorder.
Article
Biochemistry & Molecular Biology
Soraia Barbosa, Kimberly R. Andrews, Amanda R. Goldberg, Digpal S. Gour, Paul A. Hohenlohe, Courtney J. Conway, Lisette P. Waits
Summary: This study examines the neutral and adaptive processes in species and population differentiation using recently diverged sister species of ground squirrels. The results highlight the importance of neutral and adaptive differentiation in understanding genetic structure and environmental adaptation, with implications for conservation efforts.
Article
Biochemistry & Molecular Biology
Gaston I. Jofre, Gil G. Rosenthal
Summary: The study evaluates the robustness of geographic cline analysis under different evolutionary scenarios using simulations. It found that drift can distort cline shapes and increase false positive rates for signatures of selection, particularly in older hybrid zones with low migration rates. The results suggest that geographic clines are most useful for outlier analysis in young hybrid zones with large populations of hybrid individuals.
MOLECULAR ECOLOGY RESOURCES
(2021)
Article
Biochemistry & Molecular Biology
Camille Kessler, Alice Brambilla, Dominique Waldvogel, Glauco Camenisch, Iris Biebach, Deborah M. Leigh, Christine Grossen, Daniel Croll
Summary: The study explores the impact of immune function polymorphism on health and reproductive success within species, as well as the significance of genetic diversity loss in extinction risk. Through the design of a microfluidics-based amplicon sequencing assay, comprehensive genetic variation in Alpine ibex was successfully captured, revealing unexpectedly high genetic differentiation at immunity-related loci within the species.
MOLECULAR ECOLOGY RESOURCES
(2022)
Editorial Material
Multidisciplinary Sciences
Samira Asgari, Lionel A. Pousaz
Summary: An individual's genetics play a role in their susceptibility to infectious diseases and the severity of symptoms. A recent international study has identified specific regions of the human genome that can impact the risk of severe COVID-19.
Article
Biochemistry & Molecular Biology
Christen M. Bossu, Marina Rodriguez, Christine Rayne, Debra A. Chromczak, Philip G. Higgins, Lynne A. Trulio, Kristen C. Ruegg
Summary: The accelerating loss of global biodiversity is worsened by habitat fragmentation and inbreeding in small populations. To address this issue, conservation practitioners often use assisted breeding programs to increase genetic diversity in declining populations. This study demonstrates the value of genomic approaches in enhancing genetic diversity through assisted breeding efforts, focusing on a highly inbred population of Western burrowing owls. The findings highlight the importance of genomic tools in preserving the adaptive potential of small, inbred populations at risk of further decline.
Article
Biochemistry & Molecular Biology
Eric Wootton, Claude Robert, Jolle Taillon, Steeve Cote, Aaron B. A. Shafer
Summary: In this study, the relationships between measures of inbreeding, genomic constraint, and mutational load were investigated in white-tailed deer, caribou, and mountain goat. The results showed that mountain goats had higher inbreeding coefficients and more evolutionarily constrained regions compared to caribou and white-tailed deer. Additionally, white-tailed deer had the highest mutational load, followed by caribou, while mountain goats had the lowest.
Article
Ecology
Susanne Lachmuth, Thibaut Capblancq, Stephen R. Keller, Matthew C. Fitzpatrick
Summary: Ecological genomic models are used to guide conservation practices in the face of environmental change. Genomic offsets provide a tool to assess genotype-environment disruption under climate change. This study assesses the impact of various modeling components on genomic offset predictions for red spruce and highlights the importance of climate change scenario and predictor set choice.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2023)
Article
Ecology
Anusha P. Bishop, E. Anne Chambers, Ian J. Wang
Summary: Genetic diversity is crucial for population viability and adaptation. This study introduces wingen, an r package that calculates genetic diversity maps using genotypic and spatial data. It provides functions for accounting for variation in sample size, creating interpolated maps, and masking irrelevant areas. Tests show that wingen successfully captures genetic diversity variation in landscapes using different sequencing datasets. It is computationally tractable and has applications in conservation prioritization and genetic analyses.
METHODS IN ECOLOGY AND EVOLUTION
(2023)
Article
Genetics & Heredity
Emma Tudini, Matilda A. Haas, Tessa Mattiske, Amanda B. Spurdle
Summary: Different countries have varied approaches to reporting clinically important genetic findings unrelated to the initial test request. This study investigated the management and return practices of Australian genetic testing laboratories in relation to these findings. Survey responses from 15 laboratories in 2017 and 17 laboratories in 2020 showed a lack of consensus in terminology and reporting practices for such findings across different testing contexts. Laboratory policies also lacked consistency in documenting issues related to the handling of these findings. The study highlights the need for Australian-specific policy guidance and offers recommendations for developing laboratory policies.
JOURNAL OF MEDICAL GENETICS
(2023)
Article
Multidisciplinary Sciences
Anubhab Khan, Kaushalkumar Patel, Harsh Shukla, Ashwin Viswanathan, Tom van der Valk, Udayan Borthakur, Parag Nigam, Arun Zachariah, Yadavendradev Jhala, Marty Kardos, Uma Ramakrishnan
Summary: Habitat fragmentation leads to small populations, increasing the risk of inbreeding depression. Small populations can reduce inbreeding depression by purging deleterious recessive alleles. The study on Indian tiger populations found differences in inbreeding levels and mutation load between small and large populations.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Evolutionary Biology
Dimitrios Petsopoulos, Raphael Leblois, Laure Saune, Kahraman Ipekdal, Filippos A. Aravanopoulos, Carole Kerdelhue, Dimitrios N. Avtzis
BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2018)
Article
Agronomy
Ioannis Ganopoulos, Anna-Maria Farsakoglou, Filippos Aravanopoulos, Athanassios Molassiotis, Michail Michailidis, Ermioni Malliarou, Evangelia Avramidou, Athanasios Tsaftaris, Maslin Osanthanunkul, Panagiotis Madesis, Konstantinos Kazantzis, Aliki Xanthopoulou
Article
Agricultural Engineering
Eleni M. Abraham, Aikaterini Aftzalanidou, Ioannis Ganopoulos, Maslin Osathanunkul, Aliki Xanthopoulou, Evangelia Avramidou, Eirini Sarrou, Filippos Aravanopoulos, Panagiotis Madesis
INDUSTRIAL CROPS AND PRODUCTS
(2018)
Review
Forestry
Filippos A. (Phil) Aravanopoulos
Review
Forestry
Darius Kavaliauskas, Barbara Fussi, Marjana Westergren, Filippos Aravanopoulos, Domen Finzgar, Roland Baier, Paraskevi Alizoti, Gregor Bozic, Evangelia Avramidou, Monika Konnert, Hojka Kraigher
Article
Forestry
Nicolas-George H. Eliades, Filippos (Phil) A. Aravanopoulos, Andreas K. Christou
Article
Forestry
Srdan Stojnic, Evangelia V. Avramidou, Barbara Fussi, Marjana Westergren, Sasa Orlovic, Bratislav Matovic, Branislav Trudic, Hojka Kraigher, Filippos A. Aravanopoulos, Monika Konnert
Article
Biochemistry & Molecular Biology
Juan P. Jaramillo-Correa, Francesca Bagnoli, Delphine Grivet, Bruno Fady, Filippos A. Aravanopoulos, Giovanni G. Vendramin, Santiago C. Gonzalez-Martinez
Article
Agronomy
Evangelia V. Avramidou, Theodoros Moysiadis, Ioannis Ganopoulos, Michail Michailidis, Christos Kissoudis, Dimitrios Valasiadis, Konstantinos Kazantzis, Eirini Tsaroucha, Athanasios Tsaftaris, Athanassios Molassiotis, Filippos A. Aravanopoulos, Aliki Xanthopoulou
Summary: Sweet cherry germplasm exhibits high phenotypic variation, which may be a result of genetic or epigenetic diversity. The genetic diversity was found to be greater than epigenetic diversity, and epigenetic diversity was shown to have a stronger impact on phenotypic traits in predefined populations of sweet cherry than genetic diversity.
Article
Forestry
Mohamad Ali El Chami, Nikolaos Tourvas, George Kazakis, Panagiotis Kalaitzis, Filippos A. Aravanopoulos
Summary: This study assessed the genetic variability of Cretan sweet chestnut using SSR markers and revealed notable genetic diversity among the four cultivars, each of which was found to be multiclonal. Genetic differentiation among cultivars was relatively low but significant, and several synonymy groups were identified. Clustering analysis showed two main clusters corresponding to Rogdiani and Katharokastania cultivars.
Article
Forestry
Bruno Fady, Edoardo Esposito, Khaled Abulaila, Jelena M. Aleksic, Ricardo Alia, Paraskevi Alizoti, Ecaterina-Nicoleta Apostol, Phil Aravanopoulos, Dalibor Ballian, Magda Bou Dagher Kharrat, Isabel Carrasquinho, Marwan Cheikh Albassatneh, Alexandru-Lucian Curtu, Rakefet David-Schwartz, Giovanbattista de Dato, Bouchra Douaihy, Nicolas-George Homer Eliades, Louis Fresta, Semir Bechir Suheil Gaouar, Malika Hachi Illoul, Vladan Ivetic, Mladen Ivankovic, Gaye Kandemir, Abdelhamid Khaldi, Mohamed Larbi Khouja, Hojka Kraigher, Francois Lefevre, Ilene Mahfoud, Maurizio Marchi, Felipe Perez Martin, Nicolas Picard, Maurizio Sabatti, Hassan Sbay, Caroline Scotti-Saintagne, Darrin T. Stevens, Giovanni Giuseppe Vendramin, Barbara Vinceti, Marjana Westergren
Summary: This review examines the major achievements in forest genetics research in biodiversity-rich countries of the Mediterranean region over the past few decades. The analysis shows that the research is primarily focused on population diversity and differentiation, environmental conditions and stress response, and phylogeography. The study also highlights the increasing contribution of Asia and Africa to the research in the Mediterranean region. Future research priorities include studying poorly known species and populations, utilizing genomic methods, modeling adaptive capacity, and identifying areas of high and low genetic diversity for conservation and restoration.
CURRENT FORESTRY REPORTS
(2022)
Article
Forestry
Rita Verbylaite, Filippos A. Aravanopoulos, Virgilijus Baliuckas, Ausra Juskauskaite
Summary: The aim of this study was to assess the genetic diversity of protected black alder populations, compare the genetic diversity between maternal and progeny generations, and determine the impact of forest management practices on genetic diversity. The results revealed high genetic diversity in Lithuanian black alder populations, with no significant genetic differences between different generations.
Article
Plant Sciences
Rita Verbylaite, Filippos A. Aravanopoulos, Virgilijus Baliuckas, Ausra Juskauskaite, Dalibor Ballian
Summary: The aim of this study was to assess if a progeny plantation can also serve as an ex situ conservation plantation, using the case study of a Lithuanian progeny trial of Alnus glutinosa. By comparing the genetic diversity and copy number of captured alleles, it was concluded that the progeny plantation can be used as an ex situ collection for the A. glutinosa populations from the first provenance region.
Article
Computer Science, Information Systems
Eleftheria Dalmaris, Evangelia V. Avramidou, Aliki Xanthopoulou, Filippos A. Aravanopoulos
Article
Agriculture, Multidisciplinary
Ioannis Ganopoulos, Nikolaos Tourvas, Aliki Xanthopoulou, Filippos A. Aravanopoulos, Euaggelia Avramidou, Antonios Zambounis, Athanasios Tsaftaris, Panagiotis Madesis, Thomas Sotiropoulos, Nikolaos Koutinas