Developing a new molecular marker for aphid species identification: Evaluation of eleven candidate genes with species-level sampling

The mitochondrial cytochrome c oxidase subunit I (COI) gene has been utilized as a molecular marker for aphid species identification. However, this gene has sometimes resulted in misidentification because of low interspecific genetic divergences between some species pairs. In this study, to propose new molecular markers for the family Aphididae, we first screened 2289 sequences of 11 genes (COI, COII, CytB, ATP6, lrRNA, srRNA, ITS1, ITS2, EF1a, 18S, and 28S) collected from the GenBank. Among the 11 genes, ATP6 gene revealed the largest genetic divergence among congeneric species with the smallest divergence among conspecific individuals; in contrast, species pairs with low genetic divergences (< 1%) were not observed. Secondly, for statistically testing the usefulness of ATP6 gene in species identification, we analyzed genetic distances between all of the combinations of 32 individuals of 20 species for both COI and ATP6 genes. The ATP6 gene showed lower intraspecific (on average 0.08%) and higher interspecific (on average 8.28%) genetic distances than the COI gene (on average 0.19% and 6.24%, respectively) for the same pairs of individuals. This study corroborates the usefulness of the ATP6 gene as a new molecular marker that could improve the misidentification problems that are inherent with the COI gene.     

Recent advances in biological control of important native and invasive forest pests in China

In recent decades, China has suffered severe attacks by both native and invasive forest pests. We have carried out a series of research projects on biological control of these pests. The fall webworm, Hyphantria cunea (Drury) (Lepidoptera: Arctiidae) has been sustainably controlled by an effective gregarious pupal endoparasitoid, Chouioia cunea Yang (Chalcidoidea: Eulophidae), which is native to China, and spraying HcNPV virus against the pest’s larval stage. Pine wilt disease, caused by the pine wood nematode (Bursaphelenchus xylophilus (Steiner et Buhrer) Nickle) (Aphelenchida: Aphelenchidae), is currently the number one pest in China. The strategy for controlling the disease is to manipulate the nematode’s vector, Monochamus alternatus Hope (Coleoptera: Cerambycidae). We discovered that Dastarcus helophoroides (Fairmaire) (Coleoptera: Bothrideridae) is the most important natural enemy in China pine forests. Mass rearing and release techniques were studied and developed. By releasing the parasitoid, 92.6% of the M. alternatus were parasitized in the first year. Meanwhile, three elaterid beetle species were found to prey on the larva of M. alternatus. The red turpentine beetle, Dendroctonus valens (LeConte) (Coleoptera:Scolytidae) was suppressed by a predator, Rhizophagus grandis Gyllenhal (Coleoptera: Rhizophagidae) introduced from Belgium and a total 3334 ha. of pine forests were protected. The oak longhorned beetle, Massicus raddei (Blessig) (Coleoptera: Cerambycidae) is the number one pest in the northeast forests of China, where it damages trunk of oaks, mainly Quercus liaotungensis and Q. mongolicus. An integrated management technique was developed for controlling the longhorned beetle: a special black light was invented for trapping the adults; the parasitoid Sclerodermus pupariae Yang et Yao (Hymenoptera: Bethylidae) was released against young larvae; and the parasitoid Dastarcus helophoroides eggs and/or adults were released when the hosts were mature larvae and/or pupae. By applying the technique for five years in northeastern China oak forests, the oak longhorned beetle has been controlled to a large extent. The emerald ash borer, Agrilus planipennis Fairmaire (Coleoptera: Buprestidae), is native to eastern Asia, including China, and feeding by larvae damages ash trees. Natural enemies of the emerald ash borer were investigated and seven species were found in China, of which Spathius agrili Yang (Hymenoptera: Braconidae), Tetrastichus planipennisi Yang (Hymenoptera: Eulophiae), Sclerodermus pupariae Yang et Yao and Oobius agrili Zhang et Huang (Hymenoptera: Encyrtidae) are predominant and have high potential for biocontrol of the pest. The biology, behavior, ecology and mass rearing techniques of the parasitoids were studied.     

Molecular phylogeny of Trissolcus species (Hymenoptera: Scelionidae)

Trissolcus species (Hymenoptera: Scelionidae) are the most promising biological control agents against sunn pest. The accurate identification of natural enemies is crucial in order to develop successful biological control programs. This paper presents phylogenetic analyses of Trissolcus species based on data sets consisting of 18S, 28S, ITS1, ITS2 and cytochrome oxidase subunit I (COI) genes. The most commonly used genetic loci in Trissolcus species identification is the cytochrome oxidase I gene (COI). Also restriction fragment length polymorphism analyses of PCR amplified COI gene have been developed to discriminate closely related species. We suggest that Trissolcus grandis Thompson and Trissolcus semistriatus Nees split significantly into two different genetic groups while there is another species diverging from T. semistriatus which is decsribed as ‘Trissolcus flavotibialis Kocak & Guz, n. sp.’     

Diversity and Systematics of Schizomavella Species (Bryozoa: Bitectiporidae) from the Bathyal NE Atlantic

Eight NE Atlantic and Mediterranean species, which were originally assigned to the genus Schizoporella (Family Schizoporellidae) when introduced, are redescribed and stabilized by typification. Seven of these species are transferred to the bitectiporid genus Schizomavella: S. fischeri, S. glebula, S. neptuni, S. obsoleta, S. richardi, S. triaviculata, and S. triaviculata var. paucimandibulata, which is here raised to species rank. The eighth species, Schizoporella fayalensis, is transferred to the lanceoporid genus Stephanotheca. Schizomavella obsoleta and S. glebula are considered junior subjective synonyms of S. fischeri and S. richardi, respectively. Two new species are described: Schizomavella rectangularis n. sp. from the Strait of Gibraltar, and Schizomavella phterocopa n. sp. from the Great Meteor Bank. A new subgenus, Calvetomavella n. subgen. is established as a result of a phylogenetic analysis based on morphological characters; it includes S. neptuni, S. triaviculata, S. paucimandibulata and S. phterocopa n. sp., together with Schizomavella discoidea and Schizomavella noronhai. The rest of the species remain in the nominotypical subgenus Schizomavella.     

Two new species of nematode-trapping fungi: relationships inferred from morphology,rDNA and protein gene sequence analyses

Two new nematode-trapping fungi, Dactylellina sichuanensis and D. varietas from China, which capture nematodes by both adhesive knobs and non-constricting rings, are described and illustrated. D. sichuanensis is characterized by both adhesive knobs and non-constricting rings, solitary conidiophores and 3-(4)-6 septate conidia, as compared with species such as D. appendiculata, D. candida, D. leptospora and D. lysipaga. Although D. sichuanensis shares similar types of trapping devices, the presence of simple conidiophores and spindle-shaped conidia with these species, it can be distinguished by its larger conidia and presence of more than four septa. In D. sichuanensis, a single conidium is born at the tip of conidiophore, while in D. candida, 3–10 conidia are born near the apex of conidiophore in a capitate arrangement. It produces spindle-shaped conidia with 3–6 septa, whereas D. leptospora produces cylindrical-shaped conidia with 5–15 septa. D. appendiculata captures nematodes by adhesive knobs whereas D. sichuanensis captures nematodes by both adhesive knobs and non-constricting rings. They also differ in conidial size (35–82.5 μm in D. sichuanensis as compared with 57–108 μm in D. appendiculata). D. varietas is characterized by conidiophores that are branched at right-angles, and elongate to fusoid conidia, with 7–8 septa (more than 25% of which are curved). D. varietas resembles D. asthenopaga, Dactylella oxyspora and Monacrosporium multiseptatum, but has elongate-fusoid conidia, whereas D. asthenopaga possesses obconical or clavate conidia. D. varietas forms both adhesive knobs and non-constricting rings whereas Dactylella oxyspora does not produce any trapping device. M. multiseptatum differs from D. varietas in having larger conidia with an inflated middle cell. Phylogenetic analyses based on nuclear and protein coding DNA sequences (18 S, and a combined 28 S + 5.8 S + β-tubulin dataset) indicate that these two taxa should be assigned to the family Orbiliaceae.     

Morphology,Molecules, and Monogenean Parasites: An Example of an Integrative Approach to Cichlid Biodiversity

The unparalleled biodiversity of Lake Tanganyika (Africa) has fascinated biologists for over a century; its unique cichlid communities are a preferred model for evolutionary research. Although species delineation is, in most cases, relatively straightforward, higher-order classifications were shown not to agree with monophyletic groups. Here, traditional morphological methods meet their limitations. A typical example are the tropheine cichlids currently belonging to Simochromis and Pseudosimochromis. The affiliations of these widespread and abundant cichlids are poorly understood. Molecular work suggested that genus and species boundaries should be revised. Moreover, previous morphological results indicated that intraspecific variation should be considered to delineate species in Lake Tanganyika cichlids. We review the genera Simochromis and Pseudosimochromis using an integrative approach. Besides a morphometric study and a barcoding approach, monogenean Cichlidogyrus (Platyhelminthes: Ancyrocephalidae) gill parasites, often highly species-specific, are used as complementary markers. Six new species are described. Cichlidogyrus raeymaekersi sp. nov., C. muterezii sp. nov. and C. banyankimbonai sp. nov. infect S. diagramma. Cichlidogyrus georgesmertensi sp. nov. was found on S. babaulti and S. pleurospilus, C. franswittei sp. nov. on both S. marginatus and P. curvifrons and C. frankwillemsi sp. nov. only on P. curvifrons. As relatedness between Cichlidogyrus species usually reflects relatedness between hosts, we considered Simochromis monotypic because the three Cichlidogyrus species found on S. diagramma belonged to a different morphotype than those found on the other Simochromis. The transfer of S. babaulti, S. marginatus, S. pleurospilus and S. margaretae to Pseudosimochromis was justified by the similarity of their Cichlidogyrus fauna and the intermediate morphology of S. margaretae. Finally parasite data also supported the synonymy between S. pleurospilus and S. babaulti, a species that contains a large amount of geographical morphological variation.     

Molecular identification of Korean catfish (Siluriformes) based on two genetic markers

Eleven species of catfish (Siluriformes) found in Korean freshwater are economically important resources and include five endemic species. However, there are no studies on phylogenetic analysis of all catfish species in Korea at a molecular level. The species-level analysis of catfish species is usually carried out through morphological characters and controversial due to phenotypic variation. In this study, the partial sequences of 16S rRNA and cytochrome b mitochondrial genes were analyzed for species identification and phylogenetic relationships among 11 species of catfish from 10 different rivers in Korea. The nucleotide sequences of 16S rRNA and cytochrome b consisted of 587 and 441 nucleotide base pairs, respectively. Sequence analysis of both genes revealed that the 11 species fell into three distinct groups, which were genetically distinct from each other and exhibited identical phylogenetic resolution. Sequence divergences between congeneric species averaged 1.78% and 7.39% for 16S rRNA and cytochrome b, respectively. The phylogenetic relationships forming well-differentiated clades in the NJ, ML and BI trees were identical for both fragments. This research demonstrates that partial sequences of both the genes can efficiently identify the 11 species of catfish in Korea, indicating the usefulness of mtDNA-based approach in species identification.     

Three synonyms of the coastal Phucobius sharp species (Coleoptera: Staphylinidae) are proposed based on morphological and molecular characters

A taxonomic reappraisal of four marine littoral Phucobius Sharp species along the western Pacific Ocean including the South China Sea is presented based on morphological and molecular characters (COI and 28S). Specimens of the four species, each having its own distinct geographic distribution, are extremely similar to each other including the structures of the median lobe of the aedeagus, and may be regarded as conspecific. Also, the molecular analyses support the validity of P. pectoralis with three synonymies based on morphological characters. Genetic divergence of COI using uncorrected p-distance among all individuals of Phucobius species ranged from 0.11% to 3.21%. Three distinct geographical clusters (Russia, Korea and Japan, and Vietnam) are found in the NJ and PA trees and we treat all of them as a single species. Three new synonyms are proposed for Phucobius pectoralis (Boheman): P. simulator Sharp syn. nov., P. tricolor Bernhauer syn. nov., and P. densipennis Bernhauer syn. nov. Phucobius pectoralis is redescribed with illustrations of diagnostic characters. Also, the intraspecific variation among the populations of P. pectoralis is briefly discussed.     

基于线粒体细胞色素c氧化酶亚基I基因序列的帘蛤科贝类分子系统发育研究

对21种帘蛤科贝类线粒体细胞色素c氧化酶亚基Ⅰ(cytochrome c oxidase subunit I,COI)基因核苷酸序列进行了分析,以探讨这一序列在种质鉴定、分子系统发生研究中的应用价值。测序结果表明,所有物种扩增片段长度均为707 bp(含引物),序列A+T含量(62.4%—67.8%)明显高于G+C含量。物种间共有变异位点379个,其中简约信息位点334个;此区段共编码235个氨基酸,种间共有氨基酸变异位点100个。以COI基因片段序列为标记,用中国蛤蜊(Mactra chinensis)作外群,构建了35种帘蛤科贝类(其中14种贝类COI序列从GenBank下载)的系统发生树,结合拓扑结构分析和序列比对分析,结果表明:支持将短文蛤(Meretrix petechinalis)和丽文蛤(M.lusoria)订为文蛤(M.meretrix)的同物异名的观点,建议将丽文蛤和短文蛤订为文蛤的地理亚种;支持将薄片镜蛤(Dosinia corrugata)和D.angulosa订为2个独立种的观点;认为将波纹巴非蛤(Paphia undulata)和织锦巴非蛤(P.textile)订为2个独立种是合适的。COI基因序列含有丰富的遗传信息,适合作为帘蛤科贝类种群遗传结构和系统发生研究的分子标记。     

DNA barcoding of six Ceroplastes species (Hemiptera: Coccoidea: Coccidae) from China

Ceroplastes Gray (wax scales) is one of the genera of Coccidae, most species of which are considered to be serious economic pests. However, identification of Ceroplastes species is always difficult owing to the shortage of easily distinguishable morphological characters. Mitochondrial cytochrome c oxidase I (COI) sequences (or DNA barcodes) and the D2 expansion segments of the large subunit ribosomal RNA gene 28S were used for accurate identification of six Ceroplastes species (C. floridensis Comstock, C. japonicus Green, C. ceriferus (Fabricius), C. pseudoceriferus Green, C. rubens Maskell and C. kunmingensis Tang et Xie) from 20 different locations in China. For COI data, low G·C content was found in all species, averaging about 20.4%. Sequence divergences (K2P) between congeneric species averaged 12.19%, while intra‐specific divergences averaged 0.42%. All 112 samples fell into six reciprocally monophyletic clades in the COI neighbour‐joining (NJ) tree. The NJ tree inferred from 28S showed almost same results, but samples of two closely related species, C. ceriferus and C. pseudoceriferus, were clustered together. This research indicates that the standard barcode region of COI can efficiently identify similar Ceroplastes species. This study provides an example of the usefulness of barcoding for Ceroplastes identification.     

Interspecific competition between alien and native congeneric species

A good way to check hypotheses explaining the invasion of ecosystems by exotic plants is to compare alien and native congeneric species. To test the hypothesis that invasive alien plants are more competitive than natives, we designed a replacement series experiment to evaluate interspecific competition between three Senecio species representing the same bushy life form: two alien species (S. inaequidens and S. pterophorus, both from South Africa) and a native species from the south-east of the Iberian Peninsula and Maghreb (S. malacitanus). While S. inaequidens is widespread throughout western Europe and is expanding towards the south of Spanish–French border, the geographical distribution of the recently introduced S. pterophorus is still limited to north-eastern Spain. Plants from each species were grown in pure and in mixed cultures with one of their congeners, and water availability was manipulated to evaluate the effects of water stress on competitive abilities. Our results show that the alien S. inaequidens is the most competitive species for all water conditions. The native S. malacitanus is more competitive that the alien S. pterophorus in water stress conditions, but this situation is reversed when water availability is not limiting.     

DNA sequences of the mitochondrial COI gene have low levels of divergence among deep-sea octocorals (Cnidaria: Anthozoa)

We are analyzing genetic diversity in deep-seamount octocorals with the ultimate goal of studying the effect of retention and dispersal of larvae on genetic population structure. Here we report on the sequence diversity of the mitochondrial cytochrome oxidase I (COI) gene among 11 species. Uncorrected pairwise sequence divergences ranged from 0.4–10.3% for comparisons among species spanning the intrageneric to interordinal levels. Relative to other invertebrates, these divergences are very low, suggesting that COI may not be useful as a genetic marker for studying dispersal among deep-sea octocoral populations. Possible explanations for the reduced rates of divergence observed include a lower rate of evolution for octocoral mitochondrial genomes and the presence of a gene, mtMSH, which may code for a mitochondrial DNA mismatch-repair system. We report the finding of mtMSH in three deep-sea octocorals (Acanthogorgia sp., Corallium ducale, and Paramuricea sp.), which brings the total published observations of this gene to six species, all in the subclass Octocorallia.     

DNA barcoding of genus Toxoptera Koch (Hemiptera: Aphididae): Identification and molecular phylogeny inferred from mitochondrial COI sequences

Abstract Identification of aphid species is always difficult due to the shortage of easily distinguishable morphological characters. Aphid genus Toxoptera consists of species with similar morphology and similar to Aphis in most morphological characters except the stridulatory apparatus. DNA barcodes with 1 145 bp sequences of partial mitochondrial cytochrome‐coxidase I (COI) genes were used for accurate identification of Toxoptera. Results indicated mean intraspecific sequence divergences were 1.33%, whereas mean interspecific divergences were greater at 8.29% (0.13% and 7.79% if T. aurantii 3 and T. aurantii 4 are cryptic species). Sixteen samples were distinguished to four species correctly by COI barcodes, which implied that DNA barcoding was successful in discrimination of aphid species with similar morphology. Phylogenetic relationships among species of this genus were tested based on this portion of COI sequences. Four species of Toxoptera assembled a clade with low support in maximum‐parsimony (MP) analysis, maximum‐likelihood (ML) analysis and Bayesian phylogenetic trees, the genus Toxoptera was not monophyletic, and there were two sister groups, such as T. citricidus and T. victoriae, and two clades of T. aurantii which probably presented cryptic species in the genus.     

A new species of the genus <Emphasis Type="Italic">Morellia</Emphasis> Robineau-Desvoidy (Diptera: Muscidae) from Yunnan,China, with analysis of available DNA barcoding sequences

A new species of the genus Morellia Robineau-Desvoidy, 1830, Morellia (Morellia) trifurcata sp. n., collected from Yunnan, China is described. Four DNA sequences of the partial mitochondrial cytochrome c oxidase subunit I (mtCOI) gene of this new species are provided. In order to evaluate the availability of DNA barcoding for identifying Morellia species, 38 currently available, non-identical COI sequences of 16 Morellia species are involved in a molecular analysis using the neighbor-joining (NJ) method. The intra- and interspecific p-distances are summarized.     

Molecular identification and first documentation of seven species of Carpophilus Stephens (Nitidulidae: Carpophilinae) in oil palm ecosystem,Peninsular Malaysia

Sap beetles are commonly found in many agricultural systems worldwide. In Malaysia, sap beetles are less documented despite their abundance in oil palm plantations. The similarities in the morphology of the sap beetle makes the identification process difficult from the same genus. This study aims to determine of composition of the sap beetle species from the genus Carpophilus, to identify the species of sap beetles and to document the DNA barcode for those species collected from the oil palm plantation, which has never been done before. DNA of seven species of sap beetles within the subfamily Carpophilinae have been successfully amplified using cytochrome oxidase subunit I marker (COI) namely C. hemipterus (Linnaeus), C. maculatus Murray, C. mutilatus Erichson, C. marginellus Motschulsky, C. sp. 1, C. nepos Murray and C. obsoletus Erichson represented 21, 12, 33, 8, 9, 6 and 11%, respectively from the total number collected. The sequences were analysed and a tree was constructed based on Neighbor-Joining (NJ) analysis with Meligethes thalassophilus chosen as an outgroup. All of the samples showed 90–100% similarities in BOLD and BLAST analyses. NJ trees constructed show that each sap beetle species collected from the study site located at their specific lineages on the tree. Interestingly, the DNA barcoding described in this study is the first to document barcoding data of sap beetles genus Carpophilus in Malaysia and this can be a helpful tool in updating the taxonomic and molecular status of the sap beetles in Malaysia.     

Three new species of Solicorynespora from Hainan, China

Three previously undescribed Solicorynespora species were collected from tropical forests in Hainan Province, China. S. melicopes sp. nov., S. linderae sp. nov. and S. fici sp. nov. are described and illustrated from specimens collected on dead branches of Melicope triphylla, Lindera communis and Ficus auriculata, respectively. They are compared with closely related taxa. A dichotomous key and a synoptic table to Solicorynespora species are provided.     

肿腿蜂类寄生蜂室内控害效能评价——以松脊吉丁肿腿蜂为例

为了开发利用天敌资源防治害虫,科学而客观地评价肿腿蜂对蛀干害虫的控害作用,研究了松脊吉丁肿腿蜂(Sclerodermus sp.)对松褐天牛3龄幼虫的功能反应,建立了肿腿蜂类寄生蜂室内控害效能评价体系,并证明了其可行性。该评价体系包括供试虫源标准、寄生蜂生物学与寄生行为学观察、寄生蜂对寄主的功能反应和寻找寄主效应以及寄生蜂的忠岐指数(Y)4个部分。研究结果表明:松脊吉丁肿腿蜂具有较强的控害潜力,单头雌成虫能防治3—4头松褐天牛3龄幼虫,21d内最多可致死9.07头寄主幼虫;寄主密度对单头寄生蜂寄生作用功能反应的测定结果与对寄生作用寻找效应的测定结果以及对产卵量影响的测定结果一致;综合评价该蜂对松褐天牛3龄幼虫控制效能,释放比为1∶1(即1头肿腿蜂雌蜂:1头3龄松褐天牛幼虫)时最高,其忠岐指数Y为39.63,这可能是肿腿蜂类天敌特有的抚幼习性所致,结论也与寄生蜂生物学特性及寄生行为学观察结果相同。研究结论证明该评价体系是稳定可靠的。评价体系在利用天敌昆虫生物防治害虫时为筛选最佳寄生性天敌种类提供了可行的方法和依据。