Comparative whole plastome and low copy number phylogenetics of the core Saccharinae and Sorghinae.

Despite over 60 years' worth of taxonomic efforts, the relationships between sugarcane (Saccharum hybrid cultivars), Sorghum and their closest evolutionary relatives remain largely unresolved. Even relationships between generally accepted genera such as Miscanthus and Saccharum have not been examined in any large-scale molecular detail. Genera such as Erianthus, Miscanthidium and Narenga pose even greater taxonomic contention. Erianthus is not monophyletic and Erianthus sect. Ripidium (Valdés and Scholz 2006, Lloyd Evans et al. 2019a; Welker et al. 2019) represents a distinct and separate genus, Tripidium Scholz. Miscanthidium is placed within Miscanthus by many workers, whilst the New World Erianthus species and Narenga are currently placed within Saccharum. As these species represent a significant portion of the gene pool that sugarcane breeders use for introgression into sugarcane, their taxonomic placement and relationships to Saccharum are of significant economic import. Erianthus species from the Americas have not been significantly employed in sugarcane breeding and may represent an untapped genetic resource. In an attempt to resolve the taxonomic relationships of these genera, we have assembled three novel chloroplasts, from Miscanthidium capense, Miscanthidium junceum and Narenga porphyrocoma (this latter assembled from transcriptomic and long read data). In parallel, five low copy number loci have been assembled from species within Saccharum, Miscanthus, Sarga and Sorghum. Phylogenetic analyses were performed using both low copy number genes and whole chloroplasts. The phylogenetic results were compared with karyotype data to circumscribe the genera most closely related to sugarcane. We reveal that genera Miscanthus and Saccharum are monophyletic and have never undergone polyploidization outside their own genera. Genera Erianthus, Miscanthidium and Narenga are allopolyploids, which excludes them from being members of Saccharum and Miscanthus. Moreover, all three of these genera have divergent evolutionary histories. We therefore support the use of the genera Miscanthus, Miscanthidium, Erianthus (for the New World Species) and Narenga for those species and genera most closely allied to Saccharum. Our data demonstrate that all these genera should be excluded from Saccharum sensu lato.

Molecular species delimitation refines the taxonomy of native and nonnative physinine snails in North America

Being able to associate an organism with a scientific name is fundamental to our understanding of its conservation status, ecology, and evolutionary history. Gastropods in the subfamily Physinae have been especially troublesome to identify because morphological variation can be unrelated to interspecific differences and there have been widespread introductions of an unknown number of species, which has led to a speculative taxonomy. To resolve uncertainty about species diversity in North America, we targeted an array of single-locus species delimitation methods at publically available specimens and new specimens collected from the Snake River basin, USA to generate species hypotheses, corroborated using nuclear analyses of the newly collected specimens. A total-evidence approach delineated 18 candidate species, revealing cryptic diversity within recognized taxa and a lack of support for other named taxa. Hypotheses regarding certain local endemics were confirmed, as were widespread introductions, including of an undescribed taxon likely belonging to a separate genus in southeastern Idaho for which the closest relatives are in southeast Asia. Overall, single-locus species delimitation was an effective first step toward understanding the diversity and distribution of species in Physinae and to guiding future investigation sampling and analyses of species hypotheses.

The green mole, Astromycter prasinatus T. M. Harris, 1825 (Mammalia: Eulipotyphla: Talpidae): an origin story

Thaddeus William Harris described the green mole of Maine, Condylura prasinata (Mammalia: Eulipotyphla: Talpidae), in the July 1825 issue of the Boston Journal of Philosophy and the Arts, and this was considered the original description of the species throughout most of the nineteenth century. In the early twentieth century, taxonomists began instead to cite an earlier notice in the June 1825 issue of the American Journal of Science and Arts. This short article also described the species, but also established a separate genus for it, Astromycter, despite Harris’s indications elsewhere that the species was congeneric with the star-nosed mole, Condylura cristata ( Linnaeus, 1758 ). Moreover, the American Journal of Science and Arts article cited as its source the “ Machias Star”, indicating the possibility of an even earlier description of the animal. With Astromycter prasinata in synonymy with C. cristata for over a century, little effort has been exerted to determine whether earlier source materials exist or why, within two months, the green mole was allocated to two different genera by its describer. The question is taxonomically relevant today because C. prasinata predates C. cristata nigra Smith, 1940 , as an available name for north-eastern populations of star-nosed moles. If subspecies of C. cristata are to be recognized, the north-eastern subspecies should correctly bear the name C. cristata prasinata. In fact, authority for both genus- and species-group names for the green mole have been misattributed since 1825. The descriptions of C. prasinata by Thaddeus William Harris in the Boston Journal of Philosophy and the Arts and American Journal of Science and Arts were preceded by at least three published descriptions of A. prasinatus by Thaddeus Mason Harris, his father.

Re-description of the Cretaceous wasp Humiryssus leucus Lin, 1980 (Hymenoptera: Evanioidea: Baissidae)

Humiryssus Lin, 1980 is a Cretaceous genus with Humiryssus leucus Lin, 1980 as its type species established based on a tiny wasp from the Lower Cretaceous (Hauterivian-Barremian) Laocun Formation at Laocun, Jiande, Zhejiang Province, eastern China and originally placed in the extinct family Paroryssidae (Hymenoptera: Tenthredinoidea) (Lin, 1980). It was later treated jointly with the genus Manlaya Rasnitsyn, 1980 (Evanioidea: Gasteruptiidae: Baissinae) because the characters shown in the line drawing by Lin (1980) indicate a close relationship of the genus to Manlaya (Rasnitsyn et al., 1998). However, Zhang & Rasnitsyn (2004) considered it to be a separate genus within the Baissinae, which is now considered as an independent family under the Evanioidea (e.g., Li et al., 2018; Jouault et al., 2020, 2021).

Revealing the stygobiont and crenobiont Mollusca biodiversity hotspot in the Caucasus: Part III. Revision of stygobiont microsnails (Mollusca: Gastropoda: Hydrobiidae) from the Russian part of Western Transcaucasia, with the description of new taxa

A taxonomic revision of the stygobiont microsnails from north-western Transcaucasia (Krasnodar Krai, Russia) is presented. Two new genera—Schapsugia gen. n. and Tachira gen. n. are established. It is shown that the genus Paladilhiopsis does not occur in this area, and the snails previously assigned to this genus belong to Schapsugia gen. n. Two nominal species Paladilhiopsis orientalis Starobogatov, 1962, and P. subovata Starobogatov, 1962 are considered junior synonyms of Sch. pulcherrima (Starobogatov, 1962), based on a re-examination of their conchological variation. In addition, two more species of Schapsugia are described: Sch. kudepsta sp. nov. and Sch. occultata sp. nov. The anatomical structure of another species, Geyeria valvataeformis Starobogatov, 1962 was studied for the first time. It is revealed that it should be placed in a separate genus (Tachira gen. n.). Thus, the previously proposed placement of the microsnails from north-western Transcaucasia in hydrobiid genera from the Balkan Peninsula (Geyeria, Paladilhiopsis) is rejected.

Plastome evolution and organisation in the Hoya group (Apocynaceae)

The genus Hoya is highly diverse and many of its species are popular ornamental plants. However, the relationships between Hoya and related genera (the Hoya group) are not fully resolved. In this study, we report 20 newly sequenced plastomes of species in the Hoya group. The complete plastomes vary in length from 175,405 to 178,525 bp while the LSCs vary from 90,248 to 92,364 bp and the complete SSCs vary from 2,285 to 2,304 bp, making the SSC in the Hoya group one of the shortest known in the angiosperms. The plastome structure in the Hoya group is characterised by a massive increase in the size of the inverted repeats as compared to the outgroups. In all ingroup species, the IR/SSC boundary moved from ycf1 to ndhF while this was not observed in outgroup taxa, making it a synapomorphy for the Hoya group. We have also assembled the mitogenome of Hoya lithophytica, which, at 718,734 bp, is the longest reported in the family. The phylogenetic analysis using exons from 42 taxa in the Hoya group and three outgoups confirms that the earliest divergent genus in the Hoya group is Papuahoya, followed by Dischidia. The relationship between Dischidia and the clade which includes all Hoya and Oreosparte taxa, is not fully supported. Oreosparte is nested in Hoya making it paraphyletic unless Clemensiella is recognised as a separate genus.

Comparative Genomic Insights Into the Taxonomic Classification, Diversity, and Secondary Metabolic Potentials of Kitasatospora, a Genus Closely Related to Streptomyces

While the genus Streptomyces (family Streptomycetaceae) has been studied as a model for bacterial secondary metabolism and genetics, its close relatives have been less studied. The genus Kitasatospora is the second largest genus in the family Streptomycetaceae. However, its taxonomic position within the family remains under debate and the secondary metabolic potential remains largely unclear. Here, we performed systematic comparative genomic and phylogenomic analyses of Kitasatospora. Firstly, the three genera within the family Streptomycetaceae (Kitasatospora, Streptomyces, and Streptacidiphilus) showed common genomic features, including high G + C contents, high secondary metabolic potentials, and high recombination frequencies. Secondly, phylogenomic and comparative genomic analyses revealed phylogenetic distinctions and genome content differences among these three genera, supporting Kitasatospora as a separate genus within the family. Lastly, the pan-genome analysis revealed extensive genetic diversity within the genus Kitasatospora, while functional annotation and genome content comparison suggested genomic differentiation among lineages. This study provided new insights into genomic characteristics of the genus Kitasatospora, and also uncovered its previously underestimated and complex secondary metabolism.

Engellaria (Caryophyllaceae), a new North American genus segregated from Stellaria

Background and Aims: Stellaria traditionally comprises 150-200 species, mainly distributed in the temperate regions of Eurasia and North America. Molecular studies demonstrated that Stellaria is polyphyletic and includes about 120 species. The genus has a high phenotypic variability which has led to nomenclatural disorders, making the identification of the various species difficult. A note is presented about a taxon currently accepted under the genus Stellaria -Stellaria obtusa- which should be recognized as a separate genus, here proposed as Engellaria gen. nov.Methods: This study is based on examination of specimens of American and European herbaria and analysis of relevant literature.Key results: Available molecular data show that Stellaria obtusa is not included in the Stellaria s.s. clade, but instead is basal to another clade comprising the genera Honckenya, Schiedea, and Wilhelmsia. Stellaria obtusa was, therefore, compared with these three groups and with morphologically similar apetalous members of Stellaria s.s. (S. crispa, S. media, S. pallida, and S. irrigua). The results obtained lead to the recognition of S. obtusa as a separate new North American monotypic genus. A diagnostic key of the apetalous members belonging to the American Caryophyllaceae genera is proposed. Finally, the names Stellaria obtusa and S. washingtoniana (= S. obtusa) are lectotypified based on specimens deposited, respectively, at UC (isolectotypes at GH, NY, and YU) and GH (isolectotypes at BM, CAN, CAS, CS, DOV, F, GH, K, MIN, MSC, NY, US, and VT). For the name Alsine viridula (= S. obtusa) the holotype was found at US (isotypes at CAS, F, GH, NY, OSC, RM, and UC).Conclusions: Stellaria obtusa does not belong to the genus Stellaria. The present study shows that the combined use of morphological data and phylogenetic analyses helped to clarify the taxonomic position of difficult plant groups, as in Stellaria.

Taxonomy of Podoscirtinae (Orthoptera: Gryllidae). Part 13: new taxa of the subtribe Podoscirtina from Africa

The subtribe Podoscirtina of the tribe Podoscirtini is briefly discussed; it contains 11 Madagascan genera as well as 2–6 African genera, one of which is also known from Madagascar. A subgenus of the genus Kilimagryllus Sjöstedt, 1909 is here considered as a separate genus Brevitrella Gorochov, 2004, stat. nov., with two species: B. madagascarica (Gorochov, 2004), comb. nov., and B. africana (Walker, 1869), comb. nov. The following new taxa of this subtribe are described from Africa: Malawitrella sotshivkoi gen. et sp. nov. and Kilimagryllus bilobulatus sp. nov. from Malawi, K. bilobulatus limpopo subsp. nov., Parametrypa pubescens sp. nov., P. longispinosa sp. nov. and P. dentata sp. nov. from the Republic of South Africa. The new data on other African species of Podoscirtina are given: in particular, Parametrypa spiculata Saussure, 1878 is restored from synonymy with P. fortipes (Walker, 1869) as a subspecies of the latter species (P. fortipes spiculata, stat. nov.); P. viettei Chopard, 1958 is transferred to the predominantly American tribe Paroecanthini, but its generic position remains unclear.

Phylogenetic relationship of phototrophic heliobacteria and systematic reconsideration of species and genus assignments based on genome sequences of eight species

The draft genome sequences of five species of named phototrophic heliobacteria in the order Clostridiales were determined. Whole genome phylogenetic and average nucleotide identity comparison for the heliobacteria suggests that Heliobacterium chlorum and Heliobacillus mobilis are closely related to one another and belong to the same genus. The three species Heliobacterium modesticaldum , Heliobacterium undosum and Heliobacterium gestii all belong in the same genus, but are more divergent from Hbt. chlorum and belong in a separate genus, which we suggest to be called Heliomicrobium. Heliorestis convoluta is properly recognized to be in the same genus as Heliorestis acidaminivorans. Heliophilum fasciatum is clearly unlike any other and rightfully belongs in a separate genus.