Species identification and connectivity of marine amphipods in Canada’s three oceans

Tempestini, Astrid; Rysgaard, Søren; Dufresne, France

doi:10.1371/journal.pone.0197174

Cited by 30 publications

(25 citation statements)

References 86 publications

(128 reference statements)

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“…The maximum inter-specific distance of 5.51% was observed between Victoriopisa chilkensis and Orchestia platensis (table S2). The inter-specific maximum (0.16%) and minimum (5.51%) values observed were lower than what those reported in Canadian amphipods (0.6% and 18.07%, respectively) (Tempestini et al, 2018). The interspecific values observed for deep-sea amphipod species (13%) (Knox et al, 2012) was also higher than the maximum interspecific values observed in this study.…”

Section: Sequence Analysis and Species Identificationcontrasting

confidence: 66%

“…As seen in few marine amphipod species of Canadian waters (Tempestini et al, 2018), we detected no stop codons in the COI sequences. Mean GC content was 39.25+0.93% which is slightly higher than the Arctic amphipod's GC content of (32.9%) (Tempestini et al, 2018). Table 2 provides descriptive statistics for the distribution of nucleotide frequencies.…”

Section: Sequence Analysis and Species Identificationsupporting

confidence: 58%

“…Conventional taxonomy tussles to classify amphipods as they were small sized with poor taxonomic descriptions and converging morphological characters (Knowlton, 1993, Radulovici et al, 2010, making them an ideal group for DNA barcoding application. DNA barcode based identification was successful in marine amphipods of Arctic (Tempestini et al, 2018), Atlantic (Costa et al, 2009) and Pacific (Jażdżewska and Mamos, 2019) Oceans. Such efforts, however are rare in Indian Ocean realms where amphipod diversity were relatively richer (Mondal et al, 2010, Raja et al, 2013.…”

Section: Introductionmentioning

confidence: 99%

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Strengthening marine amphipod DNA barcode libraries for environmental monitoring

PrasannaKumar

Manikantan

Vijaylaxmi

et al. 2020

Preprint

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Environmental DNA (eDNA) barcoding technology is finding innovative applications in monitoring terrestrial and marine biodiversity. DNA barcode reference libraries containing barcodes for wide range of species is vital for the success of monitoring any environments using eDNA barcodes. Since amphipods are used as bio-indicators for monitoring environmental quality and its health, we used DNA barcodes of amphipods to test the efficacy of present DNA libraries for species identification. We barcoded 22 amphipod species belonging to 17 genera of 13 families. 50% of barcodes produced in the present study was generated for the first time, as the sequences were absent in GenBank and Barcode of Life Databases (BOLD). Tree based identification method used in the present study precisely clustered the generated sequences with reference sequences. Besides exploring the distribution of recorded amphipod species, we show that with advent of next generation sequencing technologies, reference datasets such as ours will become essential for assessing health and monitoring various environments using amphipod barcodes.

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Section: Sequence Analysis and Species Identificationcontrasting

confidence: 66%

Section: Sequence Analysis and Species Identificationsupporting

confidence: 58%

Section: Introductionmentioning

confidence: 99%

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Strengthening marine amphipod DNA barcode libraries for environmental monitoring

PrasannaKumar

Manikantan

Vijaylaxmi

et al. 2020

Preprint

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“…Currently, no uniform threshold value has been established for species delineation, and there is no single "universal" DNA barcode that captures all eukaryotic life. Even within a single animal order there can be large differences in this value between families (Tempestini et al 2018). Despite these issues, DNA barcoding and nextgeneration metabarcoding can reveal genetic diversity and are useful tools for the description and cataloguing of biodiversity.…”

Section: Utilization and Promotion Of Taxonomic Expertise And Speciesmentioning

confidence: 99%

Peer Review #1 of "Global marine biodiversity in the context of achieving the Aichi Targets: ways forward and addressing data gaps (v0.1)"

Thiel¹

2019

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As this plan approaches its end, we discussed whether marine biodiversity and prediction studies were nearing the Aichi Targets during the 4 th World Conference on Marine Biodiversity held in Montreal, Canada in June 2018. This article summarises the outcome of a five-day group discussion on how global marine biodiversity studies should be focused further to better understand the patterns of biodiversity. We discussed and reviewed seven fundamental biodiversity priorities related to nine Aichi Targets focusing on global biodiversity discovery and predictions to improve and enhance biodiversity data standards (quantity and quality), tools and techniques, spatial and temporal scale framing, and stewardship and dissemination. We discuss how identifying biodiversity knowledge gaps and promoting efforts have and will reduce such gaps, including via the use of new databases, tools and technology, and how these resources could be improved in the future. The group recognised significant progress toward Target 19 in relation to scientific knowledge, but negligible progress with regard to Targets 6 to 13 which aimed to safeguard and reduce human impacts on biodiversity.

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“…Currently, no uniform threshold value has been 223 established for species delineation, and there is no single "universal" DNA barcode that captures 224 all eukaryotic life. Even within a single animal order there can be large differences in this value 225 between families (Tempestini et al 2018). Despite these issues, DNA barcoding and next-226 generation metabarcoding can reveal genetic diversity and are useful tools for the description and 227 cataloguing of biodiversity.…”

mentioning

confidence: 99%

Peer Review #2 of "Global marine biodiversity in the context of achieving the Aichi Targets: ways forward and addressing data gaps (v0.1)"

Kingston¹

2019

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In 2010, the Conference of the Parties of the Convention on Biological Diversity agreed on the Strategic Plan for Biodiversity 2011-2020 in Aichi Prefecture, Japan. As this plan approaches its end, we discussed whether marine biodiversity and prediction studies were nearing the Aichi Targets during the 4 th World Conference on Marine Biodiversity held in Montreal, Canada in June 2018. This article summarises the outcome of a five-day group discussion on how global marine biodiversity studies should be focused further to better understand the patterns of biodiversity. We discussed and reviewed seven fundamental biodiversity priorities related to nine Aichi Targets focusing on global biodiversity discovery and predictions to improve and enhance biodiversity data standards (quantity and quality), tools and techniques, spatial and temporal scale framing, and stewardship and dissemination. We discuss how identifying biodiversity knowledge gaps and promoting efforts have and will reduce such gaps, including via the use of new databases, tools and technology, and how these resources could be improved in the future. The group recognised significant progress toward Target 19 in relation to scientific knowledge, but negligible progress with regard to Targets 6 to 13 which aimed to safeguard and reduce human impacts on biodiversity. Abstract 39 In 2010, the Conference of the Parties of the Convention on Biological Diversity agreed on the 40 Strategic Plan for Biodiversity 2011-2020 in Aichi Prefecture, Japan. As this plan approaches its 41 end, we discussed whether marine biodiversity and prediction studies were nearing the Aichi 42 Targets during the 4 th World Conference on Marine Biodiversity held in Montreal, Canada in June 43 2018. This article summarises the outcome of a five-day group discussion on how global marine 44 biodiversity studies should be focused further to better understand the patterns of biodiversity. We 45 discussed and reviewed seven fundamental biodiversity priorities related to nine Aichi Targets 46 focusing on global biodiversity discovery and predictions to improve and enhance biodiversity 47 data standards (quantity and quality), tools and techniques, spatial and temporal scale framing, and 48 stewardship and dissemination. We discuss how identifying biodiversity knowledge gaps and 49 promoting efforts have and will reduce such gaps, including via the use of new databases, tools 50 and technology, and how these resources could be improved in the future. The group recognised 51 significant progress toward Target 19 in relation to scientific knowledge, but negligible progress 52 with regard to Targets 6 to 13 which aimed to safeguard and reduce human impacts on biodiversity. 54 55Manuscript to be reviewed 78 members and other groups at the conference. The priorities address issues of (1) data standards, 79 (2) education in data management, (3) taxonomic expertise, (4) genetic tools, (5) international 80 collaboration, (6) identifying knowledge gaps and understanding biogeography, and (7) the need ...

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Species identification and connectivity of marine amphipods in Canada’s three oceans

Cited by 30 publications

References 86 publications

Strengthening marine amphipod DNA barcode libraries for environmental monitoring

Strengthening marine amphipod DNA barcode libraries for environmental monitoring

Peer Review #1 of "Global marine biodiversity in the context of achieving the Aichi Targets: ways forward and addressing data gaps (v0.1)"

Peer Review #2 of "Global marine biodiversity in the context of achieving the Aichi Targets: ways forward and addressing data gaps (v0.1)"

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