APMicroDB: A microsatellite database of Acyrthosiphon pisum

Abstract

Pea aphids represent a complex genetic system that could be used for QTL analysis, genetic diversity and population genetics studies. Here, we described the development of first microsatellite repeat database of the pea aphid (APMicroDB), accessible at “http://deepaklab.com/aphidmicrodb”. We identified 3,40,233 SSRs using MIcroSAtellite (MISA) tool that was distributed in 14,067 (out of 23,924) scaffold of the pea aphid. We observed 89.53% simple repeats of which 73.41% were mono-nucleotide, followed by di-nucleotide repeats. This database stored information about the repeats kind, GC content, motif type (mono - hexa), genomic location etc. We have also incorporated the primer information derived from Primer3 software of the 250bp flanking region of the identified marker. Blast tool is also provided for searching the user query sequence for identified marker and their primers. This work has an immense use for scientific community working in the field of agricultural pest management, QTL mapping, and host-pathogen interaction analysis.

De novo Transcriptome Assembly of Myllocerinus aurolineatus Voss in Tea Plants

“…Moreover,26,351 unigenes (37.95%) were annotated in at least one database ( Table 3). These results were similar to other Arthropoda species, such as 10,218 unigenes were identified in Dendroctonus ponderosae (Regniere and Bentz, 2007), 4,251 in Tribolium castaneum (Li et al, 2008), 1,207 in Papilio xuthus (Zhang and Zhang, 2017), and 353 in Acyrthosiphon pisum (Bishnoi and Singla, 2017). A total of 43.56% annotated unigenes were matched from D. ponderosae according to the proportion on the distribution of best-matched species, followed by 18.12, 5.15, 1.51, and 1.27% sequences that matched sequences from T. castaneum, P. xuthus, A. pisum, and Oryctes borbonicus, respectively.…”