Genetics In Fisheries Research Articles

In Memoriam: Fred M. Utter, a founder of fisheries genetics.

Fred Utter died in his sleep during the night of 5 March 2023 at the age of 91. In this paper, 3 friends and colleagues of Fred describe the important role that his genetics research has played in the management and conservation of fish populations.

My life with the Red Queen in fishery genetics

AbstractI had the privilege of being a part of fishery genetics from its start in the 1970s, when protein electrophoresis was first used to identify stocks of commercially important fishes and shellfishes. Research questions in fishery genetics have evolved tremendously over the past few decades, as new molecular techniques changed the nature of the questions that could be posed. The development of new DNA methods spurred the development of new theoretical models, new statistical methods and an unending stream of computer programs. These developments have led to conceptual shifts in the understanding of natural populations and how to manage them. Twists and turns in the history of fishery genetics parallel the story of the Red Queen in Lewis Carroll's Through the Looking Glass. I have had to “run in place” during my career to learn new techniques and ideas that, in turn, have been replaced with yet newer ones. However, my personal challenge throughout my career has been to develop “scientific intuition” to find underlying causes in datasets. Even though we now have the ability to sequence entire genomes, it is premature to announce the “end of history” for technical and conceptual advances in fishery genetics.

In Memoriam

In Memoriam

First occurrence of the oceanic puffer,Lagocephalus lagocephalus(Linnaeus, 1758) in Iskenderun Bay, north-eastern Mediterranean, Turkey

Journal of Applied IchthyologyVolume 33, Issue 4 p. 801-803 SHORT COMMUNICATION First occurrence of the oceanic puffer, Lagocephalus lagocephalus (Linnaeus, 1758) in Iskenderun Bay, north-eastern Mediterranean, Turkey D. Erguden, Corresponding Author D. Erguden derguden@yahoo.com Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, Turkey Correspondence D. Erguden, Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, Turkey. Emails: derguden@yahoo.com and derguden@iste.edu.trSearch for more papers by this authorM. Gurlek, M. Gurlek Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, TurkeySearch for more papers by this authorC. Turan, C. Turan Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, TurkeySearch for more papers by this author D. Erguden, Corresponding Author D. Erguden derguden@yahoo.com Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, Turkey Correspondence D. Erguden, Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, Turkey. Emails: derguden@yahoo.com and derguden@iste.edu.trSearch for more papers by this authorM. Gurlek, M. Gurlek Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, TurkeySearch for more papers by this authorC. Turan, C. Turan Molecular Ecology and Fisheries Genetics Laboratory, Marine Science Department, Faculty of Marine Science and Technology, Iskenderun Technical University, Iskenderun, Hatay, TurkeySearch for more papers by this author First published: 17 April 2017 https://doi.org/10.1111/jai.13363Citations: 6Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Share a linkShare onFacebookTwitterLinkedInRedditWechat Citing Literature Volume33, Issue4August 2017Pages 801-803 RelatedInformation

An overview of freshwater prawn fishery in Bangladesh: present status and future prospect

Ferdous Ahamed, Bernerd Fulanda, Muhammad Abu Bakar Siddik, Md. Yeamin Hossain, Md. Mostafizur Rahman Mondol, Zoarder Faruque Ahmed, Jun Ohtomi Department of Fisheries Management, Patuakhali Science and Technology University, Bangladesh Kenya Marine and Fisheries Research Institute, Marine and Coastal, P.O. Box 81651, Mombasa 80100, Kenya Department of Fisheries Biology and Genetics, Patuakhali Science and Technology University, Bangladesh Department of Fisheries, Faculty of Agriculture, University of Rajshahi, Rajshahi 6205, Bangladesh Department of Fisheries Management, Bangladesh Agricultural University, Mymensingh 2202, Bangladesh Faculty of Fisheries, Kagoshima University, 4-50-20 Shimoarata, Kagoshima 890-0056, Japan Journal of Coastal Life Medicine 2014; 2(7): 580-588

First record of the blue-barred parrotfish, Scarus ghobban Forsskål, 1775 from Turkish coastal waters

Journal of Applied IchthyologyVolume 30, Issue 2 p. 424-425 Short Communication First record of the blue-barred parrotfish, Scarus ghobban Forsskål, 1775 from Turkish coastal waters C. Turan, Corresponding Author C. Turan Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, Turkey Author's address: C. Turan, Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: cturan@mku.edu.tr; turancemal@yahoo.comSearch for more papers by this authorD. Erguden, D. Erguden Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this authorM. Gürlek, M. Gürlek Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this authorD. Yaglioglu, D. Yaglioglu Biodiversity Implementation and Research Center (DU–BIYOM), Duzce University, Duzce, TurkeySearch for more papers by this authorN. Uygur, N. Uygur Technical School of Maritime, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this author C. Turan, Corresponding Author C. Turan Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, Turkey Author's address: C. Turan, Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: cturan@mku.edu.tr; turancemal@yahoo.comSearch for more papers by this authorD. Erguden, D. Erguden Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this authorM. Gürlek, M. Gürlek Fisheries Genetics and Molecular Ecology Laboratory, Marine Sciences and Technology Faculty, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this authorD. Yaglioglu, D. Yaglioglu Biodiversity Implementation and Research Center (DU–BIYOM), Duzce University, Duzce, TurkeySearch for more papers by this authorN. Uygur, N. Uygur Technical School of Maritime, Mustafa Kemal University, Iskenderun, TurkeySearch for more papers by this author First published: 06 January 2014 https://doi.org/10.1111/jai.12402Citations: 4Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Share a linkShare onFacebookTwitterLinked InRedditWechat No abstract is available for this article.Citing Literature Volume30, Issue2April 2014Pages 424-425 RelatedInformation

Occurrence of the oilfish, Ruvettus pretiosus Cocco, 1833 (Gempylidae) in Iskenderun Bay, northeastern Mediterranean, Turkey

Journal of Applied IchthyologyVolume 29, Issue 5 p. 1158-1159 Short Communication Occurrence of the oilfish, Ruvettus pretiosus Cocco, 1833 (Gempylidae) in Iskenderun Bay, northeastern Mediterranean, Turkey M. Gurlek, Corresponding Author M. Gurlek Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, Turkey Author's address: Deniz Erguden and Mevlut Gurlek, Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: [email protected]; [email protected]Search for more papers by this authorD. Erguden, Corresponding Author D. Erguden Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, Turkey Author's address: Deniz Erguden and Mevlut Gurlek, Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: [email protected]; [email protected]Search for more papers by this authorC. Turan, C. Turan Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, TurkeySearch for more papers by this author M. Gurlek, Corresponding Author M. Gurlek Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, Turkey Author's address: Deniz Erguden and Mevlut Gurlek, Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: [email protected]; [email protected]Search for more papers by this authorD. Erguden, Corresponding Author D. Erguden Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, Turkey Author's address: Deniz Erguden and Mevlut Gurlek, Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, TR-31220 Iskenderun, Hatay, Turkey. E-mails: [email protected]; [email protected]Search for more papers by this authorC. Turan, C. Turan Fisheries Genetics and Ecology Laboratory, Marine Science and Technology Faculty, Mustafa Kemal University, Iskenderun, Hatay, TurkeySearch for more papers by this author First published: 22 April 2013 https://doi.org/10.1111/jai.12202Citations: 1Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Share a linkShare onFacebookTwitterLinkedInRedditWechat No abstract is available for this article.Citing Literature Volume29, Issue5October 2013Pages 1158-1159 RelatedInformation

On the occurrence of the giant devil ray Mobula mobular (Bonnaterre, 1788) from the Mediterranean coast of Turkey - a by-catch documentation

On the occurrence of the giant devil ray Mobula mobular (Bonnaterre, 1788) from the Mediterranean coast of Turkey – a by-catch documentation By D. Yaglioglu, C. Turan and M. Gurlek Biodiversity Implementation and Research Center (DU–BIYOM), Duzce University, Duzce, Turkey; Faculty of Fisheries, Molecular Ecology and Fisheries Genetics Laboratory, Mustafa Kemal University, Iskenderun, Hatay, Turkey

Sequencing and Characterization of Striped Venus Transcriptome Expand Resources for Clam Fishery Genetics

BackgroundThe striped venus Chamelea gallina clam fishery is among the oldest and the largest in the Mediterranean Sea, particularly in the inshore waters of northern Adriatic Sea. The high fishing pressure has lead to a strong stock abundance decline, enhanced by several irregular mortality events. The nearly complete lack of molecular characterization limits the available genetic resources for C. gallina. We achieved the first transcriptome of this species with the aim of identifying an informative set of expressed genes, potential markers to assess genetic structure of natural populations and molecular resources for pathogenic contamination detection.Methodology/Principal FindingsThe 454-pyrosequencing of a normalized cDNA library of a pool C. gallina adult individuals yielded 298,494 raw reads. Different steps of reads assembly and filtering produced 36,422 contigs of high quality, one half of which (18,196) were annotated by similarity. A total of 111 microsatellites and 20,377 putative SNPs were identified. A panel of 13 polymorphic transcript-linked microsatellites was developed and their variability assessed in 12 individuals. Remarkably, a scan to search for contamination sequences of infectious origin indicated the presence of several Vibrionales species reported to be among the most frequent clam pathogen's species. Results reported in this study were included in a dedicated database available at http://compgen.bio.unipd.it/chameleabase.Conclusions/SignificanceThis study represents the first attempt to sequence and de novo annotate the transcriptome of the clam C. gallina. The availability of this transcriptome opens new perspectives in the study of biochemical and physiological role of gene products and their responses to large and small-scale environmental stress in C. gallina, with high throughput experiments such as custom microarray or targeted re-sequencing. Molecular markers, such as the already optimized EST-linked microsatellites and the discovered SNPs will be useful to estimate effects of demographic processes and to detect minute levels of population structuring.

Spatio-temporal population structuring and genetic diversity retention in depleted Atlantic bluefin tuna of the Mediterranean Sea.

Fishery genetics have greatly changed our understanding of population dynamics and structuring in marine fish. In this study, we show that the Atlantic Bluefin tuna (ABFT, Thunnus thynnus), an oceanic predatory species exhibiting highly migratory behavior, large population size, and high potential for dispersal during early life stages, displays significant genetic differences over space and time, both at the fine and large scales of variation. We compared microsatellite variation of contemporary (n = 256) and historical (n = 99) biological samples of ABFTs of the central-western Mediterranean Sea, the latter dating back to the early 20th century. Measures of genetic differentiation and a general heterozygote deficit suggest that differences exist among population samples, both now and 96-80 years ago. Thus, ABFTs do not represent a single panmictic population in the Mediterranean Sea. Statistics designed to infer changes in population size, both from current and past genetic variation, suggest that some Mediterranean ABFT populations, although still not severely reduced in their genetic potential, might have suffered from demographic declines. The short-term estimates of effective population size are straddled on the minimum threshold (effective population size = 500) indicated to maintain genetic diversity and evolutionary potential across several generations in natural populations.

Advances in molecular technology and their impact on fisheries genetics

AbstractAlthough genetic approaches to questions in fisheries management have been very useful in the past, they have encountered consistent hurdles despite the development of new marker systems. However, recent technological advances in molecular genetics will help to overcome many of these hurdles and are likely to revolutionize fish and fisheries biology. DNA‐sequencing costs have been decreasing exponentially, and recent breakthroughs have led to rapid increase in throughput that allows sequencing the entire expressed genome of a non‐model organism with standard project budgets. Increase in screening throughput and number of available markers, reduction in costs and improved insights into gene function and control of gene expression will allow applications that were impossible until recently. Here, we briefly recount the recent history of fisheries genetics, provide an outlook on near‐term and long‐term developments in genetic technology and consider their applications and implications for fisheries science and education.

Paradigm shifts in marine fisheries genetics: ugly hypotheses slain by beautiful facts

AbstractBy providing new approaches to the investigation of demographic and evolutionary dynamics of wild populations, molecular genetics has led to fundamental changes in our understanding of marine ecology. In particular, genetic approaches have revolutionized our understanding in three areas: (i) most importantly, they have contributed to the discovery of extensive genetic population structure in many marine species, overturning the notion of large, essentially homogenous marine populations limiting local adaptation and speciation. (ii) Concomitant differences in ecologically important traits now indicate extensive adaptive differentiation and biocomplexity, potentially increasing the resilience to exploitation and disturbance. Evidence for rapid adaptive change in many populations underlies recent concerns about fisheries‐induced evolution affecting life‐history traits. (iii) A compilation of recent published research shows estimated effective population sizes that are 2–6 orders of magnitude smaller than census sizes, suggesting more complex recruitment dynamics in marine species than previously assumed. Studies on Atlantic cod are used to illustrate these paradigm shifts. In our synthesis, we emphasize the implications of these discoveries for marine ecology and evolution as well as the management and conservation of exploited marine fish populations. An important implication of genetic structuring and the potential for adaptive divergence is that locally adapted populations are unlikely to be replaced through immigration, with potentially detrimental consequences for the resilience to environmental change – a key consideration for sustainable fisheries management.

Genetic population structure across a range of geographic scales in the commercially exploited marine gastropod Buccinum undatum

MEPS Marine Ecology Progress Series Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout the JournalEditorsTheme Sections MEPS 317:157-169 (2006) - doi:10.3354/meps317157 Genetic population structure across a range of geographic scales in the commercially exploited marine gastropod Buccinum undatum D. Weetman1,*, L. Hauser1,2, M. K. Bayes3, J. R. Ellis4, P. W. Shaw3 1Department of Biological Sciences, University of Hull, Hull HU6 7RX, UK 2School of Aquatic and Fishery Sciences, University of Washington, 1122 NE Boat Street, Box 355020, Seattle, Washington 98195-5020, USA 3School of Biological Sciences, Royal Holloway, University of London, Egham, Surrey TW20 0EX, UK 4Centre for Environmental Fisheries and Aquaculture Sciences, (CEFAS) Lowestoft Laboratory, Lowestoft, Suffolk NR33 0HT, UK *Email: dweetman@hotmail.co.uk ABSTRACT: Marine invertebrates are exploited increasingly as food resources worldwide, but knowledge of genetic population structure is limited for most commercially valuable taxa. We investigated genetic structure in the widely distributed, subtidal gastropod Buccinum undatum by screening samples from 28 locations at 5 microsatellite loci. Multidimensional scaling and cluster analysis were applied to study macrogeographic structure, and revealed 4 well-supported groupings of populations: Canada, Iceland, Swedish Skaggerak, and a cluster containing most samples from the European continental shelf (hereafter ‘Shelf’). A fifth cluster comprising all 5 samples from the Solent (UK) relied on exceptional differentiation of just 2 alleles, which is consistent with significant evidence for recent bottlenecks in this area. Within the Shelf cluster most pairwise tests of differentiation were significant, although the global FST of 0.014 was very low for a direct-developing species. Our data suggest that use of highly polymorphic markers caused a relatively minor downward bias to FST, although historical connectivity of populations that are not in migration-drift equilibrium might be more important. However, significant isolation by distance among British North Sea coast samples (FST = 0.010) is consistent with approach to equilibrium and suggests recent gene flow, probably between semi-continuous populations. At a microgeographic scale, we found migration to be consistently higher from inshore to offshore within 3 separate areas; a factor that may underpin the lower diversity and greater differentiation observed for bay and inlet populations. Such populations might serve as important sources of genetic diversity, but are likely to be particularly vulnerable to exploitation. KEY WORDS: Fishery genetics · Whelk · Microsatellites · Isolation by distance · Asymmetric migration · Bottleneck Full text in pdf format PreviousNextExport citation RSS - Facebook - Tweet - linkedIn Cited by Published in MEPS Vol. 317. Online publication date: July 18, 2006 Print ISSN: 0171-8630; Online ISSN: 1616-1599 Copyright © 2006 Inter-Research.

Biotechnology and Genetics in Fisheries and Aquaculture

Aquaculture ResearchVolume 36, Issue 10 p. 1035-1036 Biotechnology and Genetics in Fisheries and Aquaculture J A Beardmore, J A Beardmore School of Biological SciencesUniversity of Wales SwanseaSingleton ParkSwanseaSA2 8PP E-mail: j.a.beardmore@swansea.ac.ukSearch for more papers by this author J A Beardmore, J A Beardmore School of Biological SciencesUniversity of Wales SwanseaSingleton ParkSwanseaSA2 8PP E-mail: j.a.beardmore@swansea.ac.ukSearch for more papers by this author First published: 08 July 2005 https://doi.org/10.1111/j.1365-2109.2005.01315.xCitations: 1Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Share a linkShare onFacebookTwitterLinked InRedditWechat No abstract is available for this article.Citing Literature Volume36, Issue10July 2005Pages 1035-1036 RelatedInformation

Book Review: Botechnology and Genetics in Fisheries and Aquaculture

Book Review: Botechnology and Genetics in Fisheries and Aquaculture

Introduction to Genetics of Subpolar Fish and Invertebrates

This 20th Wakefield Symposium, ‘The genetics of subpolar fish and invertebrates’, is the successor of the 11th Wakefield Symposium, ‘Genetics of sub- arctic fish and shellfish’, which was held in Juneau, Alaska in 1993. In the introduction to that sympo- sium (Gharrett & Smoker 1994), it was noted that: ‘beginning in the 1960s, modern tools of genetic analysis began to be broadly applied in fisheries science’, and that ‘within the past decade (referring to the 1980s), fisheries genetics had entered the main- stream of fisheries resource utilization’. That obser- vation may be an understatement in today’s world of fisheries science. Once-vigorous fisheries in many parts of the world have failed, growing demand for fisheries products has led to full utilization of many remaining capture resources and is driving an increase in aquaculture productivity, and the role of aquacul- ture has increased dramatically ([FAO 2002]). Looming over concerns of lost stocks and persistent erosion of genetic variability are predictions of global warming, which may further tax genetic resources. One of the consequences of these developments is an increased interest in and reliance on genetic applications to many aspects of fisheries management, aquaculture, and conservation.

Book Reviews

Book reviewed in this article:Stream Ecology‐Structure and Function of Running Waters. By J. David Allan.Pollution and Freshwater Fish. By R. Lloyd.Parasitic Diseases of Fish. Edited by A.W. Pike & J.W. Lewis.Molecular Genetics in Fisheries. Edited by Gary R. Carvalho & Tony J. Pitcher.

G.R. Carvalho, T.J. Pitcher, editors. Molecular genetics in fisheries, vii, 141 p. Chapman and Hall, 1995. Price £24.99 (paperback).

G.R. Carvalho, T.J. Pitcher, editors. Molecular genetics in fisheries, vii, 141 p. Chapman and Hall, 1995. Price £24.99 (paperback).

BOOK REVIEWS

Book reviewed in this articles:MECHANICS AND PHYSIOLOGY OF ANIMAL SWIMMING. Edited by Linda Maddock, Quentin Bone and Jeremy M. V.EMBRYOLOGY IN FISH, A REVIEW. By Jean Depêche and Roland Billard.WATER QUALITY AND STRESS INDICATORS IN MARINE AND FRESHWATER SYSTEMS: LINKING LEVELS OF ORGANISATION. Edited by D. W. Sutcliffe.MOLECULAR GENETICS IN FISHERIES. Edited by Gary R. Carvalho and Tony J. PitcherENVIRONMENTAL BIOLOGY OF FISHES. By Malcolm Jobling.

Molecular genetics in fisheries: current and future perspectives

Molecular genetics in fisheries: current and future perspectives