Comprehensive evaluation of genetic population structure for anadromous river herring with single nucleotide polymorphism data

Reid, Kerry; Palkovacs, Eric P.; Hasselman, Daniel J.; Baetscher, Diana S.; Kibele, Jared; Gahagan, Ben; Bentzen, Paul; McBride, Meghan C.; Garza, John Carlos

doi:10.1016/j.fishres.2018.04.014

Cited by 13 publications

(25 citation statements)

References 45 publications

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“…The shallow divergence in the northeastern sites likely derives from post-glacial expansion north (Hewitt, 1996), as has been observed in other coastal species including northern quahog and blueback herring (Baker, Austin, Bowen, & Baker, 2008;Reid et al, 2018).…”

Section: Genetic Structure and Population Historymentioning

confidence: 61%

“…The shallow divergence in the northeastern sites likely derives from post‐glacial expansion north (Hewitt, 1996), as has been observed in other coastal species including northern quahog and blueback herring (Baker, Austin, Bowen, & Baker, 2008; Reid et al., 2018). A recent study of an estuarine goby with a very similar native range to R. harrisii found a strikingly similar pattern of genetic structure, and a remarkable concordance between estimated divergence times and geological history (Milá et al., 2017).…”

Section: Discussionmentioning

confidence: 99%

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Strong genetic structure in a widespread estuarine crab: A test of potential versus realized dispersal

Tepolt

Blakeslee

Fowler

et al. 2020

Journal of Biogeography

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Aim: Genetic structure has proven difficult to predict for marine and estuarine species with multi-day pelagic larval durations, since many disperse far less than expected based on passive transport models. In such cases, the gap between potential and realized dispersal may result from larval behaviours that evolved to facilitate retention and settlement in favourable environments. Behaviour is predicted to play a particularly key role in structuring truly estuarine species, which often moderate their behaviour to remain within their natal estuaries. In such systems, this restricted dispersal may lead to high divergence, local adaptation and eventual speciation across their range. Here, we test whether a geographically widespread estuarine crab, known to have behaviour promoting larval retention, exhibits high population structure despite a 2-to 4-week larval duration. Location: Atlantic and Gulf Coasts of North America. Taxon: White-fingered mud crab, Rhithropanopeus harrisii. Methods: Population genomic analyses across nine estuaries from New Hampshire to Louisiana using 12,638 transcriptome-derived SNPs. Results: We found highly differentiated genetic signatures among all nine estuaries, separated by 200-5,000 km of coastline. Estimates of gene flow suggest that migration is low and largely symmetrical between sites. We also observed deep phylogenetic divides corresponding to major biogeographical breaks. Main conclusions: These results indicate substantial and longstanding constraints to dispersal in the species' native range, likely arising from the emergence of geological and oceanographic barriers and sustained by behaviour that promotes estuarine retention during larval development. This work supports the idea that larval behaviour promoting estuarine retention can be reflected in substantial genetic structure even in species with multi-week pelagic larval durations. Such behaviour-restricted dispersal has implications for predicting adaptation and spread in estuarine species, many of which have been introduced outside their native ranges.

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Section: Genetic Structure and Population Historymentioning

confidence: 61%

Section: Discussionmentioning

confidence: 99%

Strong genetic structure in a widespread estuarine crab: A test of potential versus realized dispersal

Tepolt

Blakeslee

Fowler

et al. 2020

Journal of Biogeography

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“…Reid et al. (2018) used a panel of single‐nucleotide polymorphisms developed by Baetscher et al. (2017) to examine population structure from Florida to Newfoundland.…”

Section: Current State Of Knowledgementioning

confidence: 99%

“…Gene flow via straying among proximate rivers promotes local admixture and recolonization (Reid et al. 2018). Genetic subdivision at larger spatial scales indicates that gene flow and straying are restricted among regions, thereby reducing the likelihood of across‐region recolonization (Reid et al.…”

Section: Current State Of Knowledgementioning

confidence: 99%

A Review of River Herring Science in Support of Species Conservation and Ecosystem Restoration

et al. 2021

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River herring—a collective name for the Alewife Alosa pseudoharengus and Blueback Herring A. aestivalis—play a crucial role in freshwater and marine ecosystems along the Eastern Seaboard of North America. River herring are anadromous and return to freshwater habitats in the tens to hundreds of millions to spawn, supplying food to many species and providing nutrients to freshwater ecosystems. After two and a half centuries of habitat loss, habitat degradation, and overfishing, river herring are at historic lows. In 2013, National Oceanic and Atmospheric Administration Fisheries established the Technical Expert Working Group (TEWG) to synthesize information about river herring and to provide recommendations to advance the science related to their restoration. This paper was composed largely by the chairs of the TEWG subgroups and represents a review of the current state of knowledge of river herring, with an emphasis on identification of threats and discussion of recent research and management actions related to understanding and reducing these threats. Important research needs are then identified and discussed. Finally, current knowledge is synthesized, considering the relative importance of different threats. This synthesis identifies dam removal and increased stream connectivity as critical to river herring restoration. Better understanding and accounting for predation, climate change, and fisheries are also important for restoration. Finally, there is recent evidence that the effects of human development and contamination on habitat quality may be more important threats than previously recognized. Given the range of threats, an ecosystem approach is needed to be successful with river herring restoration. To facilitate this ecosystem approach, collaborative forums such as the TEWG (renamed the Atlantic Coast River Herring Collaborative Forum in 2020) are needed to share and synthesize information among river herring managers, researchers, and community groups from across the species’ range.

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“…The exponential increase in genome assemblies and ease of resequencing individuals is establishing the foundations for genetic insight research useful to conservation. For example, cheap and rapid sequencing has enhanced our understanding of population structure for fisheries management [83][84][85], has enabled the characterization and mapping of beneficial genetic variation [86], and has made more rapid identification of novel pathogens associated with wildlife disease possible [87]. High quality reference genomes are particularly important for identifying adaptive variation in natural populations [88].…”

Section: The Applicability and Readiness Of Genomic And Biotechnologimentioning

confidence: 99%

Transforming Ocean Conservation: Applying the Genetic Rescue Toolkit

Novak¹,

Fraser

Maloney³

2020

Genes

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Although oceans provide critical ecosystem services and support the most abundant populations on earth, the extent of damage impacting oceans and the diversity of strategies to protect them is disconcertingly, and disproportionately, understudied. While conventional modes of conservation have made strides in mitigating impacts of human activities on ocean ecosystems, those strategies alone cannot completely stem the tide of mounting threats. Biotechnology and genomic research should be harnessed and developed within conservation frameworks to foster the persistence of viable ocean ecosystems. This document distills the results of a targeted survey, the Ocean Genomics Horizon Scan, which assessed opportunities to bring novel genetic rescue tools to marine conservation. From this Horizon Scan, we have identified how novel approaches from synthetic biology and genomics can alleviate major marine threats. While ethical frameworks for biotechnological interventions are necessary for effective and responsible practice, here we primarily assessed technological and social factors directly affecting technical development and deployment of biotechnology interventions for marine conservation. Genetic insight can greatly enhance established conservation methods, but the severity of many threats may demand genomic intervention. While intervention is controversial, for many marine areas the cost of inaction is too high to allow controversy to be a barrier to conserving viable ecosystems. Here, we offer a set of recommendations for engagement and program development to deploy genetic rescue safely and responsibly.

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Comprehensive evaluation of genetic population structure for anadromous river herring with single nucleotide polymorphism data

Cited by 13 publications

References 45 publications

Strong genetic structure in a widespread estuarine crab: A test of potential versus realized dispersal

Strong genetic structure in a widespread estuarine crab: A test of potential versus realized dispersal

A Review of River Herring Science in Support of Species Conservation and Ecosystem Restoration

Transforming Ocean Conservation: Applying the Genetic Rescue Toolkit

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