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opencc-by-4.0Aug 2022View details →

Fig. 8 in Martensina thailandica gen. et sp. nov. a freshwater ostracod representing a new subfamily of Cyprididae, Martensininae subfam. nov. (Crustacea: Ostracoda) from Thailand

Fig. 8. Martensina thailandica gen. et sp. nov., allotype, ♀ (MSU-ZOC.318). A. T2. B. T3. C. CR. Scale bars = 100 μm.

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Genome-wide analysis resolves the radiation of New Zealand's freshwater Galaxias vulgaris complex and reveals a candidate species obscured by mitochondrial capture

Aim: Freshwater fish radiations are often characterized by multiple closely-related species in close proximity, which can lead to introgression and associated discordance of mitochondrial and nuclear characterizations of species diversity. As a case in point, single locus nuclear versus mitochondrial analyses of New Zealand's stream-resident Galaxias vulgaris complex have yielded conflicting phylogenies. Our goal is to use genome-wide divergence patterns among these fishes to evaluate the potential role of mitochondrial capture in obscuring species diversity and to understand how ancient and anthropogenic drainage modification explains this diversity. Location: Freshwater ecosystems of New Zealand. Methods: We generate and analyze a genome-wide data set comprising 52,352 SNPs across 187 Galaxias specimens to resolve the phylogeny of this recent fish radiation. We conduct phylogenetic, PCA, STRUCTURE, and ABBA-BABA analyses to evaluate the evolutionary relationships of lineages in the context of natural and anthropogenic river drainage alterations. Results: In addition to the 11 previously recognized stream-resident lineages, genome-wide data reveal a twelfth candidate species (G. 'Pomahaka'), apparently obscured by introgressive mitochondrial capture. We identify additional examples of mito-nuclear discordance and putative mitochondrial capture, likely mediated by geological and anthropogenic modification of drainage boundaries. Main conclusions: Our study highlights the need for genome-wide approaches for delimiting freshwater biodiversity. Genetic data also reveal the influence of drainage history on freshwater biodiversity, including the rapid divergence of recently fragmented fish populations, and the conservation genetic risks of anthropogenic translocations events.

opencc-zeroAug 2022View details →

opencc-by-4.0Sep 2022View details →

rbcL reference sequences of marine and freshwater diatoms

This database has been modified from the R-syst::Diatom rbcL database, version 9, accessed on 3.18.2021. (see Rimet et al.2016 for details) Sequences of mostly Pseudo-nitzschia from the Gulf of Trieste and some others missing from the database were added. The names of the sequences in the .fasta file are formatted in a way that they can be used directly in dada2 for taxonomic classification.  This database represents a comprehensive marine diatom sequence archive.

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U.S. freshwater mussel occurrence data

Natural history collections are uniquely positioned to chronicle biodiversity changes across time and space and are a fundamental data source in taxon-based research and conservation. With over 90 species listed under the Endangered Species Act, freshwater mussels are one of the most imperiled animal assemblages in the United States and are the focus of considerable conservation efforts. Unfortunately, natural history collections data are often underleveraged in taxon-based conservation efforts because much of the data are decentralized and nonstandard, and thus, difficult to access and analyze. Our objective herein is to synthesize, standardize, and enrich digitized US freshwater mussel collections data to better suit the needs of conservation stakeholders. We aggregated specimen records from 45 US natural history collections and enriched these records by programmatically standardizing taxonomic information, flagging potentially problematic records, and joining records with freshwater-specific spatial frameworks and their associated hydrological metadata. The assembled dataset includes 408,770 records from 302 species and 1,540 hydrological units (8 digit-level). Using these enriched records, we estimated ecological attributes for over 280 freshwater mussel species including aspects of range size and hydrological preferences. Listed species had significantly fewer occurrences, smaller area of occupancy, and experienced greater declines in area of occupancy in comparison to non-listed species. Listed species also had a higher stream order preference and discharge preference than non-listed species. The synthesized, standardized, and enriched natural history collections data and our novel ecological estimates have revealed and corroborated important insights into freshwater mussel diversity, distribution, and decline. Stakeholders can access this data via download or interactively at the companion web app, MusselMapR (<a href="https://musselmapr.shinyapps.io/hic_sunt_naiades/">https://musselmapr.shinyapps.io/hic_sunt_naiades/</a>).

opencc-zeroOct 2022View details →

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Data and code – Effects of climate on salmonid productivity: A global meta-analysis across freshwater ecosystems

Salmonids are of immense socio-economic importance in much of the world but are threatened by climate change. This has generated a substantial literature documenting effects of climate variation on salmonid productivity in freshwater ecosystems, but there has been no global quantitative synthesis across studies. We conducted a systematic review and meta-analysis to gain quantitative insight into key factors shaping the effects of climate on salmonid productivity, ultimately collecting 1,321 correlations from 156 studies, representing 23 species across 24 countries. Fisher's Z was used as the standardized effect size, and a series of weighted mixed-effects models were compared to identify covariates that best explained variation in effects. Patterns in climate effects were complex, and were driven by spatial (latitude, elevation), temporal (time-period, age-class), and biological (range, habitat type, anadromy) variation within and among study populations. These trends were often consistent with predictions based on salmonid thermal tolerances. Namely, warming and decreased precipitation tended to reduce productivity when high temperatures challenged upper thermal limits, while opposite patterns were common when cold temperatures limited productivity. Overall, variable climate impacts on salmonids suggest that future declines in some locations may be counterbalanced by gains in others. In particular, we suggest that future warming should (1) increase salmonid productivity at high latitudes and elevations (especially >60° and >1,500m), (2) reduce productivity in populations experiencing hotter and dryer growing season conditions, (3) favor non-native over native salmonids, and (4) impact lentic populations less negatively than lotic ones. These patterns should help conservation and management organizations identify populations most vulnerable to climate change, which can then be prioritized for protective measures. Our framework enables broad inferences about future productivity that can inform decision-making under climate change for salmonids and other taxa, but more widespread, standardized, and hypothesis-driven research is needed to expand current knowledge.

opencc-zeroOct 2022View details →

opencc-by-4.0May 2022View details →

Figs 2–8 in A New Freshwater Gastropod Species Of The Genus Pseudamnicola Paulucci, 1878 From Algeria (Gastropoda: Hydrobiidae)

Figs 2–8. Pseudamnicola thawintae sp. n.: 2 = holotype, shell; 3–4 = penis in situ; 5–8 = paratypes, shells

Fig. 4 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 4. Argulus mongolianus, adult male, NSMT-Cr 29372, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. A, Habitus, dorsal view; B, habitus, ventral view; C, respiratory areas, ventral view; D, caudal rami, dorsal view; E, first antenna (a1), second antenna (a2), and postantennal spine (pas), ventral view; F, distal part of first antenna, ventral view; G, distal part of second antenna, ventral view; H, preoral sheath and stylet, ventral view; I, mouth tube, ventral view; J, mandible, ventral view; K, section of sucker membrane of first maxilla showing three supporting rods and maginal projections, ventral view; L, second maxilla and denticles on first, second, and third segments, ventral view. Scale bars: A, B, 1 mm; C, 0.5 mm; D, F, G, K, 0.05 mm; E, H, I, 0.1 mm; L, 0.3 mm; I, 0.03 mm.

Fig. 2 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 2. Argulus mongolianus, adult female (different specimen shown in Fig. 1), NSMT-Cr 29371, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. A, Thorax partially covered with carapace, anterior portion of abdomen, and sympods of fourth pair of legs, dorsal view; B, respiratory areas, ventral view; C, caudal rami, dorsal view; D, first antenna (a1), second antenna (a2), and postantennal spine (pas), ventral view; E, distal part of first antenna, ventral view; F, distal part of second antenna, ventral view; G, preoral sheath and stylet, ventral view; H, mouth tube, ventral view; I, mandible, ventral view; J, part of sucker membrane of first maxilla, ventral view; K, four supporting rods and maginal projections, ventral view; L, second maxilla and denticles on first, second, and third segments, ventral view. Scale bars: A, B, 1 mm; C, G, H, 0.1 mm; D, H, J, L, 0.2 mm; E, F, K, 0.05 mm; I, 0.02 mm.

Fig. 1 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 1. Argulus mongolianus, adult female, NSMT-Cr 29369, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. A, Habitus, dorsal view; B, habitus, ventral view. Scale bar: 2 mm.

Fig. 6 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 6. Argulus mongolianus, adult female (A and B), NSMT-Cr 29369, and adult male (C and D), NSMT-Cr 29370, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. Ethanol-preserved specimens. A, C, Habitus, dorsal view; B, D, habitus, ventral view. The adult female and male were both collected on 2 June 2020 and photographed on 2 October 2021. Scale bars: A, 2 mm; B, 1 mm.

Fig. 3 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 3. Argulus mongolianus, adult female (different specimen shown in Fig. 1), NSMT-Cr 29371, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. A, First leg, ventral view; B, distal part of endopod of first leg, ventral view; C, second leg, ventral view; D, third leg, ventral view; E, fourth leg, ventral view; F. natatory lobe, ventral view. Scale bars: A, C–E, 0.5 mm; B, F, 0.1 mm.

Fig. 5 in Redescription of Argulus mongolianus (Crustacea: Branchiura: Argulidae), an Ectoparasite of Freshwater Fishes in East Asia, with Its First Record from Japan

Fig. 5. Argulus mongolianus, adult male, NSMT-Cr 29372, from Micropterus salmoides in Lake Izunuma, Miyagi Prefecture, Japan. A, First leg, ventral view; B, distal part of endopod of first leg, ventral view; C, second leg, ventral view; D, third leg, ventral view; E, fourth leg, ventral view. Scale bars: A, C–E, 0.5 mm; B, 0.1 mm.

opencc-by-4.0Dec 2021View details →

Fig. 3. Indochinamon bhumibol, male carapace length 51.6 in A new semiterrestrial freshwater crab in the genus Badistemon and a new record of Indochinamon from northern Thailand (Brachyura: Potamidae)

Fig. 3. Indochinamon bhumibol, male carapace length 51.6 mm. A, colour in life, anterior view; B, preserved, anterior view; C, colour in life, dorsal view; D, preserved, dorsal view.

opencc-by-4.0Dec 2021View details →

Fig. 2. A–E in A new semiterrestrial freshwater crab in the genus Badistemon and a new record of Indochinamon from northern Thailand (Brachyura: Potamidae)

Fig. 2. A–E, Indochinamon bhumibol, male, carapace length 51.6 mm. A, carapace anterior and lateral surfaces, dorsal view; B, maxilliped III; C, male distal pleonal somites, ventral view; D, gonopod I, ventral view; E, male gonopod II. F–I, Badistemon nanensis, new species, holotype male, ZRC 2021.0454. F, maxilliped III; G, male distal pleonal somites, ventral view; H, gonopod I, ventral view; I, male gonopod II.

opencc-by-4.0Dec 2021View details →

Fig. 1 in A new semiterrestrial freshwater crab in the genus Badistemon and a new record of Indochinamon from northern Thailand (Brachyura: Potamidae)

Fig. 1. Badistemon nanensis, new species, holotype male, ZRC 2021.0454. A, colour in life, anterior view; B, colour in life, dorsal view; C, preserved, anterior view; D, preserved, dorsal view; E, thoracic sternites.

Fig. 5 in Ilyocypris thailandensis, a new species of freshwater ostracod (Crustacea: Ostracoda: Cypridoidea) from Thailand

Fig. 5. Ilyocypris thailandensis, new species, male (MSU-ZOC.307). A, T2; B, T3; C, CR. Scale bars: A–C = 50 μm.

Fig. 1. Ilyocypris thailandensis, new species. A–C in Ilyocypris thailandensis, a new species of freshwater ostracod (Crustacea: Ostracoda: Cypridoidea) from Thailand

Fig. 1. Ilyocypris thailandensis, new species. A–C, female; D–F, male. A, carapace, dorsal view (MSU-ZOC.313); B, LV, external view (MSU-ZOC.311); C, RV, external view (ditto); D, carapace, dorsal view (MSU-ZOC.310); E, LV, external view (MSU-ZOC.307); F, RV, external view (ditto). Scale bar: A–F = 200 μm.

Fig. 4. Ilyocypris thailandensis, new species. A–E in Ilyocypris thailandensis, a new species of freshwater ostracod (Crustacea: Ostracoda: Cypridoidea) from Thailand

Fig. 4. Ilyocypris thailandensis, new species. A–E, male (MSU-ZOC.307); F, female (MSU-ZOC.311). A, Md-coxa; B, Md-palp; C, Mx1; D–E, T1-palp; F, T1. Scale bars: A = 67 μm, B, C, F = 50 μm, D, E = 46 μm.

Fig. 3. Ilyocypris thailandensis, new species. A, B in Ilyocypris thailandensis, a new species of freshwater ostracod (Crustacea: Ostracoda: Cypridoidea) from Thailand

Fig. 3. Ilyocypris thailandensis, new species. A, B, male (MSU-ZOC.307); C, female (MSU-ZOC.311). A, A1; B, A2; C, terminal part of A2. Scale bars: A–C = 50 μm.

Fig. 6 in Ilyocypris thailandensis, a new species of freshwater ostracod (Crustacea: Ostracoda: Cypridoidea) from Thailand

Fig. 6. Ilyocypris thailandensis, new species, male. A, hemipenis (MSU-ZOC.309); Aʹ, copulatory process of A (ditto); B, hemipenis outlines (MSU-ZOC.309, 307, 308; left to right); C, Zenker organ (MSU-ZOC.307); D, Zenker organ (MSU-ZOC.308). Arrows indicate proximal ends. Scale bars: A, D = 50 μm, B = 98 μm, C = 55 μm.