Putative Species Research Articles

Ant crickets and their secrets:Myrmecophilus acervorumis not always parthenogenetic (Insecta: Orthoptera: Myrmecophilidae)

AbstractPreviously considered as a thelytokous parthenogenetic species, the widespread ant cricket Myrmecophilus acervorum actually turns out to have a mixed reproductive system: our recent surveys in the central part of its distribution area has revealed the presence of both sexes. Detailed morphological and morphometric descriptions of the previously unknown males are here provided. New data on species distribution in south-eastern Europe are presented, including the first records of M. balcanicus in Bulgaria and of M. nonveilleri in Bulgaria and Hungary. Phylogenetic and phylogeographic analyses have revealed several haplotypes of M. acervorum in Europe, with six of them forming a parthenogenetic clade in populations distributed west of the Carpathians. We tested our samples for bacterial infection by Wolbachia and, surprisingly, Wolbachia was identified only in populations with both sexes and no amplification was obtained from parthenogenetic populations. Phylogenetic analyses performed with sequences pertaining to five nominal species related to M. acervorum, yielded topological congruent trees with four well-supported groups: one group with M. acervorum samples, the second group with M. nonveilleri samples, the third group with M. fuscus and M. gallicus samples, and the fourth group with samples of M. balcanicus. We performed species delineation tests on our sequences, which delimited between four to seven putative species.

Genome Characterization of Bird-Related Rhabdoviruses Circulating in Africa.

Rhabdoviridae is the most diverse family of the negative, single-stranded RNA viruses, which includes 40 ecologically different genera that infect plants, insects, reptiles, fishes, and mammals, including humans, and birds. To date, only a few bird-related rhabdoviruses among the genera Sunrhavirus, Hapavirus, and Tupavirus have been described and analyzed at the molecular level. In this study, we characterized seven additional and previously unclassified rhabdoviruses, which were isolated from various bird species collected in Africa during the 1960s and 1970s. Based on the analysis of their genome sequences obtained by next generation sequencing, we observed a classical genomic structure, with the presence of the five canonical rhabdovirus genes, i.e., nucleoprotein (N), phosphoprotein (P), matrix protein (M), glycoprotein (G), and polymerase (L). In addition, different additional open reading frames which code putative proteins of unknown function were identified, with the common presence of the C and the SH proteins, within the P gene and between the M and G genes, respectively. Genetic comparisons and phylogenetic analysis demonstrated that these seven bird-related rhabdoviruses could be considered as putative new species within the genus Sunrhavirus, where they clustered into a single group (named Clade III), a companion to two other groups that encompass mainly insect-related viruses. The results of this study shed light on the high diversity of the rhabdoviruses circulating in birds, mainly in Africa. Their close relationship with other insect-related sunrhaviruses raise questions about their potential role and impact as arboviruses that affect bird communities.

Resolving the Tetrastigma loheri s. l. Species Complex (Vitaceae) in the Philippines: No Evidence for Recognizing More than One Species

Abstract— Tetrastigma loheri (Vitaceae) is a vine species native to Borneo and the Philippines. Because it is a commonly encountered forest species in the Philippines, T. loheri is potentially suitable for studying patterns of genetic diversity and connectivity among fragmented forest ecosystems in various parts of this country. However, previous research suggests that T. loheri is part of a species complex in the Philippines (i.e. the T. loheri s. l. complex) that potentially also contains Philippine plants identified as T. diepenhorstii, T. philippinense, T. stenophyllum, and T. trifoliolatum. This uncertainty about its taxonomic delimitation can make it challenging to draw conclusions that are relevant to conservation from genetic studies using this species. Here, we tested the hypothesis that T. loheri s. l. is composed of more than one species in the Philippines. For this, we used generalized mixed Yule coalescent (GMYC) and Poisson tree process (PTP) species delimitation models to identify clades within DNA sequence phylogenies of T. loheri s. l. that might constitute species within this complex. Although these methods identified several putative species, these are statistically poorly supported and subsequent random forest analyses using a geometric morphometric leaf shape dataset and several other vegetative characters did not result in the identification of characters that can be used to discriminate these putative species morphologically. Furthermore, the results of principal component and principal coordinates analyses of these data suggest the absence of morphological discontinuities within the species complex. Under a unified species concept that uses phylogenetic and morphological distinction as operational criteria for species recognition, we therefore conclude that the currently available data do not support recognizing multiple species in the T. loheri s. l. complex. This implies that T. loheri is best considered as a single, morphologically variable species when used for studying patterns of genetic diversity and connectivity in the Philippines.

High diversity and local endemism in Aotearoa New Zealand's groundwater crustacean fauna.

We used DNA barcoding to assess the diversity and distribution of New Zealand's groundwater amphipods and isopods (Crustacea) and to determine whether biodiversity and endemism within tectonically active New Zealand are similar to those of more tectonically stable continents. Sixty‐five wells were sampled in seven aquifers across four regions within the North and South islands of New Zealand, and resident invertebrates were morphologically identified and then assessed using sequencing of the mitochondrial DNA cytochrome c oxidase subunit one (COI) gene. Invertebrates were found in 54 wells. Of the 228 individual amphipods and isopods found in 36 of the wells, 154 individuals were successfully sequenced for COI (68% success rate) from 25 wells, with at least one well in each aquifer containing sequenced individuals. Of the 45 putative species identified using Barcode Index Numbers (BINs), 30 BINs (78% of all taxa and 83% of amphipods) were previously unrecorded. Substantial morphologically cryptic, species‐level diversity was revealed, particularly within the amphipod Family Paraleptamphopidae. Similarly, one isopod taxon morphologically identified as Cruregens fontanus was assigned to five well‐separated BINs based on COI sequences. Endemism appeared high, with all taxa regionally endemic; 87% of species were restricted to one aquifer and more than 50% restricted to one well. Non‐saturated species accumulation curves indicated that, while additional sampling may increase the range of some currently identified taxa, additional range‐restricted taxa are also likely to be discovered. Patterns of diversity and short‐range endemism were similar to those found elsewhere, including locations which are more tectonically stable. The predominance of local endemism within New Zealand's groundwater fauna suggests that land‐use activities and groundwater extraction require careful evaluation to minimize threats to groundwater biodiversity.

Identifying Early Stages of Freshwater Fish with DNA Barcodes in Several Sinkholes and Lagoons from the East of Yucatan Peninsula, Mexico

Our work shows the efficacy of DNA barcoding for recognizing the early stages of freshwater fish. We collected 3195 larvae and juveniles. Of them, we identified 43 different morphotypes. After DNA barcodes of 350 specimens, we ascertained 7 orders, 12 families, 19 genera, 20 species, and 20 Barcode Index Numbers, corresponding to putative species. For the first time, we reported the presence of the brackish species, Gobiosoma yucatanum in Lake Bacalar. Specimens of the genus Atherinella sp. and Anchoa sp. are possibly new species. Using both methods, morphology, and DNA barcodes, we identified 95% of the total larvae collected (2953 to species, and 78 to genus), and all of them were native. From them, the order Gobiiformes represented 87%. The most abundant species were Lophogobius cyprinoides and Dormitator maculatus, followed by Gobiosoma yucatanum and Ctenobius fasciatus. The Muyil and Chuyanché lagoons have the highest number of species. We present for the first time a short description of Cyprinodon artifrons and Floridichthys polyommus. This information conforms an indispensable baseline for ecological monitoring, to evaluate impacts, and developing management and conservation plans of biodiversity, principally in areas under human pressure such as Sian Ka’an, and Lake Bacalar, where tourism is high and growing in disorder.

Changes in floral shape: insights into the evolution of wildNicotiana(Solanaceae)

AbstractFloral shape and size play a role in plant diversification and reproductive isolation. Different floral forms can rise by selective pressures by pollinators/ecological constraints and/or genetic drift. Nicotiana (Solanaceae) has c. 82 currently recognized species grouped in 13 sections. Nicotiana forgetiana and N. alata belong to section Alatae and present different floral traits related to their primary pollinators. These species co-occur in a region of plant endemism in southern Brazil marked by a mosaic between open grasslands and Araucaria forest. Here, we conducted a population-level sampling across the range of N. forgetiana and combined geometric morphometric analyses and ecological niche modelling to shed light on the patterns underlying intraspecific floral shape variation. Corolla shape and size varied significantly across the geographical distribution of N. forgetiana and ‘rastroensis’, a putative new species. These floral shape differences were related to variations in temperature, precipitation and elevation. We also observed a range of intermediate floral traits in two populations, and our results of geometric morphometric analyses reveal morphological overlap between N. alata and N. forgetiana. Moreover, we found that habitat suitability for both species was impacted by past climatic oscillations, with severe reduction for N. forgetiana during the Last Glacial Maximum. We discuss the results to shed light on the evolution of N. forgetiana.

Molecular species delimitation of shrub frogs of the genus Pseudophilautus (Anura, Rhacophoridae).

Sri Lanka is an amphibian hotspot of global significance. Its anuran fauna is dominated by the shrub frogs of the genus Pseudophilautus. Except for one small clade of four species in Peninsular India, these cool-wet adapted frogs, numbering some 59 extant species, are distributed mainly across the montane and lowland rain forests of the island. With species described primarily by morphological means, the diversification has never yet been subjected to a molecular species delimitation analysis, a procedure now routinely applied in taxonomy. Here we test the species boundaries of Pseudophilautus in the context of the phylogenetic species concept (PSC). We use all the putative species for which credible molecular data are available (nDNA–Rag-1; mt-DNA– 12S rRNA, 16S rRNA) to build a well resolved phylogeny, which is subjected to species delimitation analyses. The ABGD, bPTP, mPTP and bGMYC species delimitation methods applied to the 16S rRNA frog barcoding gene (for all species), 12S rRNA and Rag-1 nDNA grouped P. procax and P. abundus; P. hallidayi and P. fergusonianus; P. reticulatus and P. pappilosus; P. pleurotaenia and P. hoipolloi; P. hoffmani and P. asankai; P. silvaticus and P. limbus; P. dilmah and P. hankeni; P. fulvus and P. silus.. Surprisingly, all analyses recovered 14 unidentified potential new species as well. The geophylogeny affirms a distribution across the island’s aseasonal ‘wet zone’ and its three principal hill ranges, suggestive of allopatric speciation playing a dominant role, especially between mountain masses. Among the species that are merged by the delimitation analyses, a pattern leading towards a model of parapatric speciation emerges–ongoing speciation in the presence of gene flow. This delimitation analysis reinforces the species hypotheses, paving the way to a reasonable understanding of Sri Lankan Pseudophilautus, enabling both deeper analyses and conservation efforts of this remarkable diversification. http://zoobank.org/urn:lsid:zoobank.org:pub:DA869B6B-870A-4ED3-BF5D-5AA3F69DDD27.

Trichogramma species in Samoa and their potential as biological control agents against the large cabbage moth, Crocidolomia pavonana

Crocidolomia pavonana F. (Lepidoptera: Crambidae) is a major pest of Brassica crops. No effective natural enemies of C. pavonana were known until the discovery of a population of the egg parasitoid Trichogramma chilonis Ishii (Hymenoptera: Trichogrammatidae) that was effective in suppressing the pest in Samoa. Records of significantly lower parasitism of C. pavonana by T. chilonis throughout Asia raise questions about whether the Samoan population of T. chilonis is misidentified or represents an unrecognized cryptic species. In this study, egg parasitoids of C. pavonana and three co-occurring Lepidoptera species were surveyed across Samoa. Although T. chilonis was found to be the dominant parasitoid of all host egg species, two other Trichogramma species, T. australicum and T. achaeae, were recorded from Samoa for the first time. We tested for the presence of cryptic species among sequenced global populations of T. chilonis and populations within Samoa using a combination of species delimitation analyses using DNA sequences and population genetic analyses based on newly developed microsatellite markers. Species delimitation analyses indicated that multiple species were present among global populations identified as T. chilonis, suggesting that some records of parasitism attributed to T. chilonis represent misidentifications or undescribed cryptic species. However, the boundaries between putative species did not fully explain the significant parasitism of C. pavonana in Samoa. Microsatellite markers revealed high levels of gene flow across T. chilonis populations developing from different host egg species in Samoa. The potential importance of multiple host use by T. chilonis for suppression of C. pavonana populations is discussed. We recommend that further assessments of the species status of T. chilonis populations in the Asia-Pacific region should be prioritized to inform the development of a biological control program utilizing the Samoan T. chilonis population.

First Evidence of Cryptic Species Diversity and Population Structuring of Selaroides leptolepis in the Tropical Western Pacific

The yellowstripe scad,Selaroides leptolepis(Carangidae), is an important fish commodity in the Tropical Western Pacific (TWP). It has a latitudinal Pacific range from south of Japan down to northern Australia, with the highest concentration in Southeast Asia. However, its TWP fishing grounds have long been a hotspot of unsustainable exploitations, thus threatening the remaining wild populations. Despite the species’ commercial significance, there is limited understanding of its genetic structure and diversity. Herein, the genetic structure ofS. leptolepiswas examined using mitochondrialCOIandCytBsequences. Both markers denoted significant genetic structuring based on high overall FSTvalues. Hierarchical analysis of molecular variance (AMOVA), maximum likelihood (ML) phylogenetic trees, and median-joining (MJ) haplotype networks strongly supported the occurrence of two allopatrically distributed lineages. These comprised of a widespread Asian lineage and an isolated Australian lineage. Within-lineage distances were low (K2P < 1%) whereas across-lineage distances were remarkably high (K2P > 6%), already comparable to that of interspecific carangid divergences. Haplotype sequence memberships, high genetic variations, and the geographic correlation suggested that the Australian lineage was a putative cryptic species. Historical demographic inferences also revealed that the species experienced rapid expansion commencing on the late Pleistocene, most likely during the end of the Last Glacial Maximum (∼20,000 years ago). The present study encouraged the application of lineage-specific management efforts, as the lineages are experiencing different evolutionary pressures. Overall, accurate knowledge of the species’ genetic distribution is fundamental in protecting its diversity and assuring stock sustainability.

Molecular Characterization and Taxonomic Assignment of Three Phage Isolates from a Collection Infecting Pseudomonassyringae pv. actinidiae and P.syringae pv. phaseolicola from Northern Italy.

Bacterial kiwifruit vine disease (Pseudomonas syringae pv. actinidiae, Psa) and halo blight of bean (P. syringae pv. phaseolicola, Pph) are routinely treated with copper, leading to environmental pollution and bacterial copper resistance. An alternative sustainable control method could be based on bacteriophages, as phage biocontrol offers high specificity and does not result in the spread of toxic residues into the environment or the food chain. In this research, specific phages suitable for phage-based biocontrol strategies effective against Psa and Pph were isolated and characterized. In total, sixteen lytic Pph phage isolates and seven lytic Psa phage isolates were isolated from soil in Piedmont and Veneto in northern Italy. Genome characterization of fifteen selected phages revealed that the isolated Pph phages were highly similar and could be considered as isolates of a novel species, whereas the isolated Psa phages grouped into four distinct clades, two of which represent putative novel species. No lysogeny-, virulence- or toxin-related genes were found in four phages, making them suitable for potential biocontrol purposes. A partial biological characterization including a host range analysis was performed on a representative subset of these isolates. This analysis was a prerequisite to assess their efficacy in greenhouse and in field trials, using different delivery strategies.

Natural Hybrid Origin of the Controversial "Species" Clematis × pinnata (Ranunculaceae) Based on Multidisciplinary Evidence.

Interspecific hybridization is common and has often been viewed as a driving force of plant diversity. However, it raises taxonomic problems and thus impacts biodiversity estimation and biological conservation. Although previous molecular phylogenetic studies suggested that interspecific hybridization may be rather common in Clematis, and artificial hybridization has been widely applied to produce new Clematis cultivars for nearly two centuries, the issue of natural hybridization of Clematis has never been addressed in detail. In this study, we tested the hybrid origin of a mesophytic and cold-adapted vine species, Clematis pinnata, which is a rare and taxonomically controversial taxon endemic to northern China. Using field investigations, flow cytometry (FCM), phylogenomic analysis, morphological statistics, and niche modeling, we tested hybrid origin and species status of C. pinnata. The FCM results showed that all the tested species were homoploid (2n = 16). Phylonet and HyDe analyses based on transcriptome data showed the hybrid origins of C. × pinnata from either C. brevicaudata × C. heracleifolia or C. brevicaudata × C. tubulosa. The plastome phylogeny depicted that C. × pinnata in different sampling sites originated by different hybridization events. Morphological analysis showed intermediacy of C. × pinnata between its putative parental species in many qualitative and quantitative characters. Niche modeling results suggested that C. × pinnata had not been adapted to a novel ecological niche independent of its putative parents. These findings demonstrated that plants of C. × pinnata did not formed a self-evolved clade and should not be treated as a species. The present study also suggests that interspecific hybridization is a common mechanism in Clematis to generate diversity and variation, and it may play an important role in the evolution and diversification of this genus. Our study implies that morphological diversity caused by natural hybridization may overstate the real species diversity in Clematis.

Patterns of Genomic Instability in Interspecific Yeast Hybrids With Diverse Ancestries.

The genomes of hybrids often show substantial deviations from the features of the parent genomes, including genomic instabilities characterized by chromosomal rearrangements, gains, and losses. This plastic genomic architecture generates phenotypic diversity, potentially giving hybrids access to new ecological niches. It is however unclear if there are any generalizable patterns and predictability in the type and prevalence of genomic variation and instability across hybrids with different genetic and ecological backgrounds. Here, we analyzed the genomic architecture of 204 interspecific Saccharomyces yeast hybrids isolated from natural, industrial fermentation, clinical, and laboratory environments. Synchronous mapping to all eight putative parental species showed significant variation in read depth indicating frequent aneuploidy, affecting 44% of all hybrid genomes and particularly smaller chromosomes. Early generation hybrids with largely equal genomic content from both parent species were more likely to contain aneuploidies than introgressed genomes with an older hybridization history, which presumably stabilized the genome. Shared k-mer analysis showed that the degree of genomic diversity and variability varied among hybrids with different parent species. Interestingly, more genetically distant crosses produced more similar hybrid genomes, which may be a result of stronger negative epistasis at larger genomic divergence, putting constraints on hybridization outcomes. Mitochondrial genomes were typically inherited from the species also contributing the majority nuclear genome, but there were clear exceptions to this rule. Together, we find reliable genomic predictors of instability in hybrids, but also report interesting cross- and environment-specific idiosyncrasies. Our results are an important step in understanding the factors shaping divergent hybrid genomes and their role in adaptive evolution.

Phylogenomic Analysis Substantiates the gyrB Gene as a Powerful Molecular Marker to Efficiently Differentiate the Most Closely Related Genera Myxococcus, Corallococcus, and Pyxidicoccus.

Rapid and accurate strain identification of the most closely related genera Myxococcus, Corallococcus, and Pyxidicoccus can enhance the efficiency of the mining of novel secondary metabolites through dereplication. However, the commonly used 16S rRNA gene sequencing cannot accurately differentiate members of the three genera above, and the whole-genome sequencing is unable to rapidly and inexpensively provide species assignation toward a large number of isolates. To overcome the limitations, the gyrB gene was investigated as a candidate genetic marker for exploring the phylogenetic relationships of bacteria within the three genera and for developing the gyrB-based typing method. Here, the bacterial phylogeny and species affiliations of the three genera were determined based on the phylogenomic reconstruction and the analysis of digital DNA–DNA hybridization values among 90 genomes, further confirming nine novel taxa and assigning over one-third of genomes to defined species. The phylogenetic relationships of these strains based on the gyrB gene sequences were congruent with those based on their genome sequences, allowing the use of the gyrB gene as a molecular marker. The gyrB gene-specific primers for the PCR-amplification and sequencing of bacteria within the three genera were designed and validated for 31 isolates from our group collection. The gyrB-based taxonomic tool proved to be able to differentiate closely related isolates at the species level. Based on the newly proposed 98.6% identity threshold for the 966-bp gyrB gene and the phylogenetic inference, these isolates were assigned into two known species and eight additional putative new species. In summary, this report demonstrated that the gyrB gene is a powerful phylogenetic marker for taxonomy and phylogeny of bacteria within the closely related genera Myxococcus, Corallococcus, and Pyxidicoccus, particularly in the case of hundreds or thousands of isolates in environmental studies.

Omega-3 carboxylic acids and fenofibrate differentially alter plasma lipid mediators in patients with non-alcoholic fatty liver disease.

Fibrates and omega-3 polyunsaturated acids are used for the treatment of hypertriglyceridemia but have not demonstrated consistent effects on cardiovascular (CV) risk. In this study, we investigate how these two pharmacological agents influence plasma levels of bioactive lipid mediators, aiming to explore their efficacy beyond that of lipid-lowering agents. Plasma from overweight patients with non-alcoholic fatty liver disease (NAFLD) and hypertriglyceridemia, participating in a randomized placebo-controlled study investigating the effects of 12weeks treatment with fenofibrate or omega-3 free carboxylic acids (OM-3CA) (200mg or 4g per day, respectively), were analyzed for eicosanoids and related PUFA species, N-acylethanolamines (NAE) and ceramides. OM-3CA reduced plasma concentrations of proinflammatory PGE2 , as well as PGE1 , PGD1 and thromboxane B2 but increased prostacyclin, and eicosapentaenoic acid- and docosahexaenoic acid-derived lipids of lipoxygenase and cytochrome P450 monooxygenase (CYP) (e.g., 17-HDHA, 18-HEPE, 19,20-DiHDPA). Fenofibrate reduced plasma concentrations of vasoactive CYP-derived eicosanoids (DHETs). Although OM-3CA increased plasma levels of the NAE docosahexaenoyl ethanolamine and docosapentaenoyl ethanolamine, and fenofibrate increased palmitoleoyl ethanolamine, the effect of both treatments may have been masked by the placebo (olive oil). Fenofibrate was more efficacious than OM-3CA in significantly reducing plasma ceramides, pro-inflammatory lipids associated with CV disease risk. Neither treatment affected putative lipid species associated with NAFLD. Our results show that OM-3CA and fenofibrate differentially modulate the plasma mediator lipidome, with OM-3CA promoting the formation of lipid mediators with potential effects on chronic inflammation, while fenofibrate mainly reducing ceramides. These findings suggest that both treatments could ameliorate chronic inflammation with possible impact on disease outcomes, independent of triglyceride reduction.

Description of Trichodorus marylandi n. sp. (Nematoda: Trichodoridae) from Maryland, USA

Summary During nematode surveys in natural vegetation, a new species, described herein as Trichodorus marylandi n. sp., was identified in addition to Paratrichodorus species and Nanidorus minor from Maryland, USA, and three putative new Trichodorus species from California. Trichodorus marylandi n. sp. is about 1 mm long with a medium-sized onchiostyle 54 (47-59) μm long. Males are characterised by a single ventromedian cervical papilla located anterior to the secretory-excretory pore, all three ventromedian precloacal supplements located anterior to the retracted spicules, and spicules 42 (38-44) μm long showing a minor indentation at the level of the posterior border of the capsule of the protractor muscles. Females possess a short barrel-shaped vagina when the body is relaxed, and two sublateral body pores on each side, one up to four body diam. anterior to the vulva and one advulvar in position. A rare observation of a ‘hood’ ventrally attached to a moulting male juvenile was observed and illustrated. Trichodorus marylandi n. sp. is morphologically closest to T. obtusus. Based on recent information gained from molecular data for Trichodorus species that has revealed the occurrence of several cryptic species, T. proximus is temporarily accepted as a valid species until molecular data become available from topotype specimens. Phylogenetic relationships within trichodorids, as inferred from the analyses of the D2-D3 expansion segments of 28S rRNA and ITS2 rRNA gene analysis and a statistical parsimony network showing the phylogenetic relationships between COI haplotypes of T. obtusus and T. marylandi n. sp., are also provided.

The Discovery and Preliminary Geological and Faunal Descriptions of Three New Steinahóll Vent Sites, Reykjanes Ridge, Iceland

During RVMS Merianexpedition MSM75, an international, multidisciplinary team explored the Reykjanes Ridge from June to August 2018. The first area of study, Steinahóll (150–350 m depth), was chosen based on previous seismic data indicating hydrothermal activity. The sampling strategy included ship- and AUV-mounted multibeam surveys, Remotely Operated Vehicle (ROV), Epibenthic Sledge (EBS), and van Veen grab (vV) deployments. Upon returning to Steinahóll during the final days of MSM75, hydrothermal vent sites were discovered using the ROV Phoca (Kiel, GEOMAR). Here we describe and name three new, distinct hydrothermal vent site vulnerable marine ecosystems (VMEs); Hafgufa, Stökkull, Lyngbakr. The hydrothermal vent sites consisted of multiple anhydrite chimneys with large quantities of bacterial mats visible. The largest of the three sites (Hafgufa) was mapped, and reconstructed in 3D. In total 23,310 individual biological specimens were sampled comprising 41 higher taxa. Unique fauna located in the hydrothermally venting areas included two putative new species of harpacticoid copepod (Tisbesp. nov. andAmphiascussp. nov.), as well as the spongeLycopodina cupressiformis(Carter, 1874). Capitellidae Grube, 1862 and Dorvilleidae Chamberlin, 1919 families dominated hydrothermally influenced samples for polychaetes. Around the hydrothermally influenced sites we observed a notable lack of megafauna, with only a few species being present. While we observed hydrothermal associations, the overall species composition is very similar to that seen at other shallow water vent sites in the north of Iceland, such as the Mohns Ridge vent fields, particularly with peracarid crustaceans. We therefore conclude the community overall reflects the usual “background” fauna of Iceland rather than consisting of “vent endemic” communities as is observed in deeper vent systems, with a few opportunistic species capable of utilizing this specialist environment.

More intraguild prey than pest species in arachnid diets may compromise biological control in apple orchards

Understanding the full diet of natural enemies is necessary for evaluating their role as biocontrol agents, because many enemy species do not only feed on pests but also on other natural enemies. Such intraguild predation can compromise pest control if the consumed enemies are actually better for pest control than their predators. In this study, we used gut metabarcoding to quantify diets of all common arachnid species in Swedish and Spanish apple orchards. For this purpose, we designed new primers that reduce amplification of arachnid predators while retaining high amplification of all prey groups. Results suggest that most arachnids consume a large range of putative pest species on apple but also a high proportion of other natural enemies, where the latter constitute almost a third of all prey sequences. Intraguild predation also varied between regions, with a larger content of heteropteran bugs in arachnid guts from Spanish orchards, but not between orchard types. There was also a tendency for cursorial spiders to have more intraguild prey in the gut than web spiders. Two groups that may be overlooked as important biocontrol agents in apple orchards seem to be theridiid web spiders and opilionids, where the latter had several small-bodied pest species in the gut. These results thus provide important guidance for what arachnid groups should be targets of management actions, even though additional information is needed to quantify all direct and indirect interactions occurring in the complex arthropod food webs in fruit orchards.

Complete mitochondrial genomes of three reef forming Acropora corals (Acroporidae, Scleractinia) from Chagos Archipelago, Indian Ocean

We present the first mitochondrial genomes from Chagos Archipelago, Indian Ocean, of three putative species of reef forming Acropora (Acropora aff. tenuis, Acropora aff.cytherea and Acropora aff. orbicularis). The circular genome consists respectively of 18,334 bp, 18,353 bp and 18,584 bp. All mitochondrial genomes recovered comprise 13 protein-coding genes, two transfer RNA genes and two ribosomal RNA genes, with an overall GC content ranging from 37.9% to 38.0%. These new genomic data contribute to our increased understanding of genus Acropora and its species boundaries, ultimately aiding species monitoring and conservation efforts.

Distribution and Molecular Diversity of Whitefly Species Colonizing Cassava in Kenya.

Simple SummaryThe whitefly, Bemisia tabaci (Gennadium, Hemiptera) is a crop pest and plant-virus vector known to transmit more than 300 plant viruses. Among other plant viruses, the vector transmits viruses that cause the two major devastating viral diseases of cassava in sub-Saharan Africa namely cassava mosaic disease (CMD) and cassava brown streak disease (CBSD). In order to achieve effective implementation of whitefly management programs including prevention of spread of the species, accurate species identification is vital. Morphological identification approaches toward whitefly species limits the capacity to accurately identify new species, especially the presence of cryptic species such as the numerous B. tabaci genetic groups. Using the mitochondrial DNA cytochrome oxidase 1 (mtCO1) sequences, four distinct whitefly species namely Bemisia tabaci, Bemisia afer, Aleurodicus dispersus and Paraleyrodes bondari were identified in samples collected from major cassava growing regions in Kenya. The study presents the first report of P. bondari (Bondar’s nesting whitefly) on cassava in Kenya. We found three B. tabaci genetic groups of SSA1, SSA2 and Indian Ocean (IO) putative species colonizing cassava in Kenya. The information is useful to inform better management strategies of the whitefly vectors to reduce the impact of cassava viral diseases, which continue to be a threat to food security in major cassava growing regions.The whitefly, Bemisia tabaci (Gennadium, Hemiptera) has been reported to transmit viruses that cause cassava mosaic disease (CMD) and cassava brown streak disease (CBSD) in many parts of sub-Saharan Africa (SSA). Currently, there is limited information on the distribution, species and haplotype composition of the whitefly populations colonizing cassava in Kenya. A study was conducted in the major cassava growing regions of Kenya to address this gap. Analyses of mitochondrial DNA cytochrome oxidase 1 (mtCO1) sequences revealed the presence of four distinct whitefly species: Bemisia tabaci, Bemisia afer, Aleurodicus dispersus and Paraleyrodes bondari in Kenya. The B. tabaci haplotypes were further resolved into SSA1, SSA2 and Indian Ocean (IO) putative species. The SSA1 population had three haplogroups of SSA1-SG1, SSA-SG2 and SSA1-SG3. Application of KASP genotyping grouped the Bemisia tabaci into two haplogroups namely sub-Saharan Africa East and Southern Africa (SSA-ESA) and sub-Saharan Africa East and Central Africa (SSA-ECA). The study presents the first report of P. bondari (Bondar’s nesting whitefly) on cassava in Kenya. Bemisia tabaci was widely distributed in all the major cassava growing regions in Kenya. The increased detection of different whitefly species on cassava and genetically diverse B. tabaci mitotypes indicates a significant influence on the dynamics of cassava virus epidemics in the field. The study highlights the need for continuous monitoring of invasive whitefly species population on cassava for timely application of management practices to reduce the impact of cassava viral diseases and prevent potential yield losses.

OrtSuite: from genomes to prediction of microbial interactions within targeted ecosystem processes.

The high complexity found in microbial communities makes the identification of microbial interactions challenging. To address this challenge, we present OrtSuite, a flexible workflow to predict putative microbial interactions based on genomic content of microbial communities and targeted to specific ecosystem processes. The pipeline is composed of three user-friendly bash commands. OrtSuite combines ortholog clustering with genome annotation strategies limited to user-defined sets of functions allowing for hypothesis-driven data analysis such as assessing microbial interactions in specific ecosystems. OrtSuite matched, on average, 96% of experimentally verified KEGG orthologs involved in benzoate degradation in a known group of benzoate degraders. We evaluated the identification of putative synergistic species interactions using the sequenced genomes of an independent study that had previously proposed potential species interactions in benzoate degradation. OrtSuite is an easy-to-use workflow that allows for rapid functional annotation based on a user-curated database and can easily be extended to ecosystem processes where connections between genes and reactions are known. OrtSuite is an open-source software available at https://github.com/mdsufz/OrtSuite.