A genotyping array for the globally invasive vector mosquito, Aedes albopictus.

BACKGROUND: Although whole-genome sequencing (WGS) is the preferred genotyping method for most genomic analyses, limitations are often experienced when studying genomes characterized by a high percentage of repetitive elements, high linkage, and recombination deserts. The Asian tiger mosquito (Aedes albopictus), for example, has a genome comprising up to 72% repetitive elements, and therefore we set out to develop a single-nucleotide polymorphism (SNP) chip to be more cost-effective. Aedes albopictus is an invasive species originating from Southeast Asia that has recently spread around the world and is a vector for many human diseases. Developing an accessible genotyping platform is essential in advancing biological control methods and understanding the population dynamics of this pest species, with significant implications for public health. METHODS: We designed a SNP chip for Ae. albopictus (Aealbo chip) based on approximately 2.7 million SNPs identified using WGS data from 819 worldwide samples. We validated the chip using laboratory single-pair crosses, comparing technical replicates, and comparing genotypes of samples genotyped by WGS and the SNP chip. We then used the chip for a population genomic analysis of 237 samples from 28 sites in the native range to evaluate its usefulness in describing patterns of genomic variation and tracing the origins of invasions. RESULTS: Probes on the Aealbo chip targeted 175,396 SNPs in coding and non-coding regions across all three chromosomes, with a density of 102 SNPs per 1 Mb window, and at least one SNP in each of the 17,461 protein-coding genes. Overall, 70% of the probes captured the genetic variation. Segregation analysis found that 98% of the SNPs followed expectations of single-copy Mendelian genes. Comparisons with WGS indicated that sites with genotype disagreements were mostly heterozygotes at loci with WGS read depth < 20, while there was near complete agreement with WGS read depths > 20, indicating that the chip more accurately detects heterozygotes than low-coverage WGS. Sample sizes did not affect the accuracy of the SNP chip genotype calls. Ancestry analyses identified four to five genetic clusters in the native range with various levels of admixture. CONCLUSIONS: The Aealbo chip is highly accurate, is concordant with genotypes from WGS with high sequence coverage, and may be more accurate than low-coverage WGS.

Papers published in Zootaxa concerning Neuropterida.

In the first twenty years of the publication of Zootaxa, more than two hundred papers have appeared in this journal that address the Neuropterida, which collectively includes the [Neuroptera+Raphidioptera]+Megaloptera sections (initially "Minor orders" section). A dozen submitted manuscripts were rejected before the review process, and another dozen submissions were rejected following the peer review process. Additional content and general submission history of these contributions is summarized here. These various contributions highlight the growing body of research on the Neuropterida and the importance of Zootaxa as a key journal for publishing and disseminating this research.

First record of the family Sialidae (Megaloptera) from Thailand and description of the female and putative larva of Indosialis bannaensis.

Indosialis bannaensis is reported from northern Thailand marking the first record of the family, genus, and species from this country. The female and the probable larva of the species are described for the first time.

Gynomorphic mandible morphology in the dobsonfly, Corydalus cornutus.

Two aberrant males of Corydalus cornutus (L.) (Insecta: Megaloptera), which exhibit unusually short mandibles with discrete dentition, are recorded from a locality in Missouri. Morphological details of the specimens, as well as implications for the overall morphological variation of the genus and species are discussed. The term gynomorphic is suggested as the best descriptor of this case, given that little explanatory information is available to classify these specimens as true gynandromorphs.

Preliminary survey of the mayflies (Ephemeroptera) and caddisflies (Trichoptera) of Big Bend Ranch State Park and Big Bend National Park.

The mayfly (Insecta: Ephemeroptera) and caddisfly (Insecta: Trichoptera) fauna of Big Bend National Park and Big Bend Ranch State Park are reported based upon numerous records. For mayflies, sixteen species representing four families and twelve genera are reported. By comparison, thirty-five species of caddisflies were collected during this study representing seventeen genera and nine families. Although the Rio Grande supports the greatest diversity of mayflies (n=9) and caddisflies (n=14), numerous spring-fed creeks throughout the park also support a wide variety of species. A general lack of data on the distribution and abundance of invertebrates in Big Bend National and State Park is discussed, along with the importance of continuing this type of research.

Rapid identification of dengue virus by reverse transcription-polymerase chain reaction using field-deployable instrumentation.

Dengue virus universal and dengue serotype 1 to 4, fluorogenic probe hydrolysis (TaqMan), reverse transcription-polymerase chain reaction assays were developed for screening and serotype identification of infected mosquito vectors and human sera using a field-deployable, fluorometric thermocycler. Dengue universal and dengue 1 to 4 serotype assay in vitro sensitivity and specificity results were 100% concordant when tested with total nucleic acid extracts of multiple strains of dengue serotype 1 to 4, yellow fever, Japanese encephalitis, West Nile, and St. Louis encephalitis viruses. The in vitro sensitivity and specificity results for all five assays were concordant when tested with a blind panel of 27 dengue virus-infected mosquitoes, 21 non-dengue (yellow fever, West Nile, or St. Louis encephalitis) flavivirus-infected mosquitoes, and 11 uninfected mosquitoes and with clinical specimens consisting of a human serum panel of eight dengue viremic and 31 non-dengue-infected febrile patient serum samples. No cross-reaction occurred with vector species or human genomic DNA. Sample processing and polymerase chain reaction required <2 hours.

Identification of Aedes aegypti and its respective life stages by real-time polymerase chain reaction.

An Aedes aegypti-specific, fluorogenic probe hydrolysis (Taq-Man), polymerase chain reaction assay was developed for real-time screening using a field-deployable thermocycler. Laboratory-based testing of A. aegypti, A. aegypti (Trinidad strain), Culex pipiens, Culex quinquefasciatus, Anopheles stephensi, and Ochlerotatus taeniorhynchus individual adult mosquitoes and mixed pools (n = 10) demonstrated 100% concordance in both in vitro sensitivity (six of six samples) and specificity (10 of 10 samples). A single adult A. aegypti was identified in a pool of 100 non-A. aegypti mosquitoes. The limit of detection of A. aegypti egg pools was five individual eggs. Field testing was conducted in central Honduras. An A. aegypti and Culex spp. panel of individual and mixed pools (n = 30) of adult mosquitoes, pupae, and larvae demonstrated 100% concordance in sensitivity (22 of 22 samples) and 97% concordance in specificity (29 of 30 samples), with one false-positive result. Field testing of an A. aegypti and Culex spp. blind panel (n = 16) consisting of individual and mixed pools of adult mosquitoes, pupae, and larvae demonstrated 90% concordance in sensitivity (nine of 10 samples) and 88% concordance in specificity (14 of 16 samples).