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A DNA barcode library for ground beetles of Germany: the genus Amara Bonelli, 1810 (Insecta, Coleoptera, Carabidae).

ABSTRACT: The genus Amara Bonelli, 1810 is a very speciose and taxonomically difficult genus of the Carabidae. The identification of many of the species is accomplished with considerable difficulty, in particular for females and immature stages. In this study the effectiveness of DNA barcoding, the most popular method for molecular species identification, was examined to discriminate various species of this genus from Central Europe. DNA barcodes from 690 individuals and 47 species were analysed, including sequences from previous studies and more than 350 newly generated DNA barcodes. Our analysis revealed unique BINs for 38 species (81%). Interspecific K2P distances below 2.2% were found for three species pairs and one species trio, including haplotype sharing between Amara alpina/Amara torrida and Amara communis/Amara convexior/Amara makolskii. This study represents another step in generating an extensive reference library of DNA barcodes for carabids, highly valuable bioindicators for characterizing disturbances in various habitats.

SUBMITTER: Raupach MJ

PROVIDER: S-EPMC5968077 | biostudies-literature |

REPOSITORIES: biostudies-literature

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A DNA barcode library for ground beetles of Germany: the genus <i>Pterostichus</i> Bonelli, 1810 and allied taxa (Insecta, Coleoptera, Carabidae).

Project description:Species of the ground beetle genus Pterostichus Bonelli, 1810 are some of the most common carabids in Europe. This publication provides a first comprehensive DNA barcode library for this genus and allied taxa including Abax Bonelli, 1810, Molops Bonelli, 1810, Poecilus Bonelli, 1810, and Stomis Clairville, 1806 for Germany and Central Europe in general. DNA barcodes were analyzed from 609 individuals that represent 51 species, including sequences from previous studies as well as more than 198 newly generated sequences. The results showed a 1:1 correspondence between BIN and traditionally recognized species for 44 species (86%), whereas two (4%) species were characterized by two BINs. Three BINs were found for one species (2%), while one BIN for two species was revealed for two species pairs (8%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for four species pairs. Haplotype sharing was found for two closely related species pairs: Pterostichus adstrictus Eschscholtz, 1823/Pterostichus oblongopunctatus (Fabricius, 1787) and Pterostichus nigrita Paykull, 1790/Pterostichus rhaeticus Heer, 1837. In contrast to this, high intraspecific sequence divergences with values above 2.2% were shown for three species (Molops piceus (Panzer, 1793), Pterostichus panzeri (Panzer, 1805), Pterostichus strenuus (Panzer, 1793)). Summarizing the results, the present DNA barcode library does not only allow the identification of most of the analyzed species, but also provides valuable information for alpha-taxonomy as well as for ecological and evolutionary research. This library represents another step in building a comprehensive DNA barcode library of ground beetles as part of modern biodiversity research.

| S-EPMC7642132 | biostudies-literature

A DNA barcode library for ground beetles (Insecta, Coleoptera, Carabidae) of Germany: The genus Bembidion Latreille, 1802 and allied taxa.

Project description:As molecular identification method, DNA barcoding based on partial cytochrome c oxidase subunit 1 (COI) sequences has been proven to be a useful tool for species determination in many insect taxa including ground beetles. In this study we tested the effectiveness of DNA barcodes to discriminate species of the ground beetle genus Bembidion and some closely related taxa of Germany. DNA barcodes were obtained from 819 individuals and 78 species, including sequences from previous studies as well as more than 300 new generated DNA barcodes. We found a 1:1 correspondence between BIN and traditionally recognized species for 69 species (89%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for three species pairs, including two species pairs with haplotype sharing (Bembidion atrocaeruleum/Bembidion varicolor and Bembidion guttula/Bembidion mannerheimii). In contrast to this, deep intraspecific sequence divergences with distinct lineages were revealed for two species (Bembidion geniculatum/Ocys harpaloides). Our study emphasizes the use of DNA barcodes for the identification of the analyzed ground beetles species and represents an important step in building-up a comprehensive barcode library for the Carabidae in Germany and Central Europe as well.

| S-EPMC4926639 | biostudies-literature

The ground beetle tribe Platynini Bonelli, 1810 (Coleoptera, Carabidae) in the southern Levant: dichotomous and interactive identification tools, ecological traits, and distribution.

Project description:The carabids of the tribe Platynini from the southern Levant (Egypt: Sinai Peninsula, Israel, Jordan) and adjacent regions of Egypt, Lebanon, Syria, Iraq, and Saudi Arabia are reviewed in terms of species taxonomy, ecological, distributional traits, and conservation biology. In addition to a classical dichotomous identification key to the 14 species of the region, identification tools are made freely available via the Xper3 knowledge database "Platynini, southern Levant". Besides an interactive identification key, a matrix with character states for the species and single access identification keys are available. A database including all available records from the southern Levant is also provided. First faunistic records are recorded for Anchomenusdorsalisinfuscatus from Sinai (Egypt), Olisthopusfuscatus from Lebanon and Iraq, and for O.glabricollis from Iraq. Threatened species are discussed, also with regard to the reasons of their decline. The majority of species lives in wetlands, especially on the shore of winter ponds and streams, which have been extremely degraded in the last decades.

| S-EPMC9425446 | biostudies-literature

The Mitochondrial Genome of <i>Amara aulica</i> (Coleoptera, Carabidae, Harpalinae) and Insights into the Phylogeny of Ground Beetles.

Project description:Carabidae are one of the most species-rich families of beetles, comprising more than 40,000 described species worldwide. Forty-three complete or partial mitochondrial genomes (mitogenomes) from this family have been published in GenBank to date. In this study, we sequenced a nearly complete mitogenome of Amara aulica (Carabidae), using a next-generation sequencing method. This mitogenome was 16,646 bp in length, which encoded the typical 13 mitochondrial protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and a putative control region. Combining with the published mitogenomes of Carabidae and five outgroup species from Trachypachidae, Gyrinidae and Dytiscidae, we performed phylogenetic estimates under maximum likelihood and Bayesian inference criteria to investigate the phylogenetic relationships of carabid beetles. The results showed that the family Carabidae was a non-monophyletic assemblage. The subfamilies Cicindelinae, Elaphrinae, Carabinae, Trechinae and Harpalinae were recovered as monophyletic groups. Moreover, the clade (Trechinae + (Brachininae + Harpalinae)) was consistently recovered in all analyses.

| S-EPMC7074353 | biostudies-literature

The Dromiusina Bonelli, 1810 of southwestern Saudi Arabia with description of a new species (Coleoptera, Carabidae, Lebiini).

Project description:In this paper, species of the subtribe Dromiusina Bonelli, 1810 from southwestern Saudi Arabia are revised. Eleven species in six genera (Calodromius, Dromius, Mesolestes, Metadromius, Microlestes, and Zolotarevskyella) are recognized. Dromius saudiarabicus Rasool, Abdel-Dayem and Felix, sp. n. is newly described species from Rayda Nature Reserve Asir province. The presence of Metadromius ephippiatus in Saudi Arabia is doubtful. A key is also provided to genera and species level for Dromiusina of Saudi Arabia.

| S-EPMC6043620 | biostudies-literature

The ground beetles (Coleoptera, Carabidae) of southern Kuril Islands, Russia.

Project description:BackgroundWe compiled a list of the ground beetles that have been confirmed to occur to date in the southern Kuril Islands, Russian Far East. The list includes 168 species, all of which are known from Kunashir Island and the species richness on the remaining islands ranges from 68 (Shikotan Island) to 21 species (Tanfil'eva Island). The species richness is shown to depend sublinearly on island area, this being unusual for island faunas (Triantis et al. 2011).New informationA large part of data is published here for the first time on the records of ground beetles in the southern Kuril Islands with precise localities. This allows not only the taxonomic composition of the faunas, but also the composition of local faunas to be discussed.

| S-EPMC8613138 | biostudies-literature

An unexpected clade of South American ground beetles (Coleoptera, Carabidae, Bembidion).

Project description:Phylogenetic relationships of the Antiperyphanes Complex of the genus Bembidion are inferred using DNA sequences from seven genes (two nuclear ribosomal, four nuclear protein coding, and one mitochondrial protein coding). Redefined subgenera within the complex are each well-supported as monophyletic. Most striking was the discovery that a small set of morphologically and ecologically heterogeneous species formed a clade, here called subgenus Nothonepha. This unexpected result was corroborated by the discovery of deep pits in the lateral body wall (in the mesepisternum) of all Nothonepha, a trait unique within Bembidion. These pits are filled with a waxy substance in ethanol-preserved specimens. In one newly discovered species (Bembidion tetrapholeon sp. n., described here), these pits are so deep that their projections into the body cavity from the two sides touch each other internally. These structures in Bembidion (Nothonepha) are compared to very similar mesepisternal pits which have convergently evolved in two other groups of carabid beetles. The function of these thoracic pits is unknown. Most members of subgenus Nothonepha have in addition similar but smaller pits in the abdomen. A revised classification is proposed for the Antiperyphanes Complex.

| S-EPMC4109512 | biostudies-literature

Phylogenetic diversification patterns and divergence times in ground beetles (Coleoptera: Carabidae: Harpalinae).

Project description:BackgroundHarpalinae is a species rich clade of carabid beetles with many unusual morphological forms and ecological interactions. How this diversity evolved has been difficult to reconstruct, perhaps because harpalines underwent a rapid burst of diversification early in their evolutionary history. Here we investigate the tempo of evolution in harpalines using molecular divergence dating techniques and explore the rates of lineage accumulation in harpalines and their sister group.ResultsAccording to molecular divergence date estimates, harpalines originated in the mid Cretaceous but did not diversify extensively until the late Cretaceous or early Paleogene about 32 million years after their origin. In a relatively small window of time, harpalines underwent rapid speciation. Harpalines have a relative high net diversification rate and increased cladogenesis in some regions of the clade. We did not see a significant decrease in diversification rate through time in the MCCR test, but a model of diversification with two shift points to lower diversification rates fit the harpaline lineage accumulation through time the best.ConclusionsOur results indicate harpalines are significantly more diverse and have higher diversification than their sistergroup. Instead of an immediate burst of explosive diversification, harpalines may have had a long "fuse" before major lineages diversified during the early Paleogene when other taxa such as mammals, birds, and some flowering plants were also rapidly diversifying.

| S-EPMC2939577 | biostudies-literature

New cavernicolous ground beetles from Anhui Province, China (Coleoptera, Carabidae, Trechini, Platynini).

Project description:A new genus and three new species of cave-adapted ground beetles are reported from the limestone cave Shenxian Dong in Huangshan Shi, southeastern Anhui Province, China. Shenoblemus gen. nov. is proposed to place the anophthalmic trechine species S. minusculus sp. nov. This genus is characterized by the tiny but stout body, sub-moniliform antennae, serrated elytral margins near the base, and a wide distance between the fifth and sixth pores of the marginal umbilicate series on the elytra. In addition, two new species, Wanoblemus huangshanicus sp. nov. (an anophthalmic trechine) and Jujiroa inexpectata sp. nov. (a microphthalmic platynine), are also described and illustrated from the same cave.

| S-EPMC7142169 | biostudies-literature

Occurrence of cavernicolous ground beetles in Anhui Province, eastern China (Coleoptera, Carabidae, Trechinae).

Project description:Two new species of anophthalmic ground beetles belonging to the subfamily Trechinae are described: Cimmeritodes (Zhecimmerites) parvus Tian & Li, sp. n. and Wanoblemus wui Tian & Fang, gen. n., sp. n. Both were discovered in the limestone caves of Anhui Province in eastern China. Cimmeritodes (Zhecimmerites) parvus was found in caves Ziwei Dong, Xianren Dong and Qingtai Dong, whereas Wanoblemus wui was discovered in cave Baiyun Dong. This is the first record of cavernicolous ground beetles in Anhui Province, eastern China.

| S-EPMC5096365 | biostudies-literature

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