High‐throughput identification and diagnostics of pathogens and pests: overview and practical recommendations

L Tedersoo, R Drenkhan, S Anslan… - Molecular ecology …, 2019 - Wiley Online Library
High‐throughput identification technologies provide efficient tools for understanding the
ecology and functioning of microorganisms. Yet, these methods have been only rarely used …

ExpressAnalyst: A unified platform for RNA-sequencing analysis in non-model species

P Liu, J Ewald, Z Pang, E Legrand, YS Jeon… - Nature …, 2023 - nature.com
The increasing application of RNA sequencing to study non-model species demands easy-
to-use and efficient bioinformatics tools to help researchers quickly uncover biological and …

Modern technologies and algorithms for scaffolding assembled genomes

J Ghurye, M Pop - PLoS computational biology, 2019 - journals.plos.org
The computational reconstruction of genome sequences from shotgun sequencing data has
been greatly simplified by the advent of sequencing technologies that generate long reads …

Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usneaantarctica and …

F Grewe, E Lagostina, H Wu, C Printzen… - …, 2018 - pmc.ncbi.nlm.nih.gov
Neuropogonoid species in the lichen-forming fungal genus Usnea exhibit great
morphological variation that can be misleading for delimitation of species. We specifically …

Insights into chemosensory proteins from non-model insects: Advances and perspectives in the context of pest management

P Lizana, A Mutis, A Quiroz, H Venthur - Frontiers in Physiology, 2022 - frontiersin.org
Nowadays, insect chemosensation represents a key aspect of integrated pest management
in the Anthropocene epoch. Olfaction-related proteins have been the focus of studies due to …

Evaluating the effect of overharvesting on genetic diversity and genetic population structure of the coconut crab

T Yorisue, A Iguchi, N Yasuda, Y Yoshioka, T Sato… - Scientific reports, 2020 - nature.com
Birgus latro (coconut crab) is an edible crustacean that has experienced serious
overharvesting throughout its whole habitat range; however, the negative effects of …

Putting the genome in insect phylogenomics

KP Johnson - Current opinion in insect science, 2019 - Elsevier
Highlights•Next-generation sequencing has greatly increased the size of phylogenetic
datasets.•Genome reduction approaches are economical, but have limitations.•Full genome …

PAV-spotter: using signal cross-correlations to identify Presence/Absence Variation in target capture data

M de Visser, C van der Ploeg, M Cvijanović, T Vučić… - BioRxiv, 2024 - biorxiv.org
High throughput sequencing technologies have become essential in the fields of
evolutionary biology and genomics. When dealing with non-model organisms or genomic …

Genetic diversity and the origin of commercial plantation of Indonesian teak on Java Island

E Prasetyo, Widiyatno, S Indrioko, M Na'iem… - Tree Genetics & …, 2020 - Springer
Teak (Tectona grandis) has been widely planted in 70 tropical countries because of the
utility and value of its wood. This species was introduced to Indonesia more than 100 years …

[HTML][HTML] Phylogenomic approach reveals strong signatures of introgression in the rapid diversification of neotropical true fruit flies (Anastrepha: Tephritidae)

C Congrains, RA Zucchi, RA de Brito - Molecular Phylogenetics and …, 2021 - Elsevier
New sequencing techniques have allowed us to explore the variation on thousands of
genes and elucidate evolutionary relationships of lineages even in complex scenarios, such …