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7 pages, 199 KiB

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Correction: de Mazancourt et al. Updated Checklist of the Freshwater Shrimps (Decapoda: Caridea: Atyidae) of Mindoro Island, the Philippines, with a Description of a New Species of Caridina. Arthropoda 2023, 1, 374–397

by Valentin de Mazancourt, Hendrik Freitag, Kristina von Rintelen, Marivene Manuel-Santos and Thomas von Rintelen

Arthropoda 2024, 2(2), 149-155; https://doi.org/10.3390/arthropoda2020011 - 16 May 2024

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Abstract

There was a mistake in Supplementary Table S1 as published in the original publication [...] Full article

24 pages, 2326 KiB

Open AccessArticle

Updated Checklist of the Freshwater Shrimps (Decapoda: Caridea: Atyidae) of Mindoro Island, the Philippines, with a Description of a New Species of Caridina

by Valentin de Mazancourt, Hendrik Freitag, Kristina von Rintelen, Marivene Manuel-Santos and Thomas von Rintelen

Arthropoda 2023, 1(4), 374-397; https://doi.org/10.3390/arthropoda1040015 - 12 Oct 2023

Cited by 2 | Viewed by 3381 | Correction

Abstract

Following recent expeditions to Mindoro Island, the Philippines, numerous samples of atyid shrimps were collected and then studied in an integrative taxonomy framework. A total of 16 species belonging to 4 genera are hereby reported, including 8 new records for the island and/or the Philippines: Atydina atyoides, Caridina bruneiana, C. celebensis, C. elongapoda, C. papuana, C. parvirostris, C. typus, C. zhujiangensis, and one new species, Caridina leptopoda sp. nov. Sequences of 16S rRNA have been produced for all of the species and taxonomical notes are provided. To account for the morphological variability across its range, C. bruneiana Choy, 1992 is herein re-described based on specimens from Mindoro. All of the species reported here from Mindoro have small eggs and are considered amphidromous, which suggests that they all potentially occur in other localities. This contrasts with other islands of the Philippines such as Bohol or Luzon where endemic species with large eggs can be found. Full article

(This article belongs to the Special Issue Alpha-Level Taxonomy of Decapod Crustaceans)

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10 pages, 2624 KiB

Open AccessArticle

Ancyronyx jhoanae sp. nov. (Coleoptera: Elmidae), A New Spider Riffle Beetle Species from Luzon, Philippines, and New Records for A. tamaraw Freitag, 2013

by Christalle Beatriz N. Seno and Hendrik Freitag

Taxonomy 2023, 3(1), 85-94; https://doi.org/10.3390/taxonomy3010008 - 2 Feb 2023

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Abstract

Ancyronyx jhoanae sp. nov., a new species of genus Ancyronyx Erichson, 1847 from Luzon is described using an integrative taxonomic approach. Illustrations of habitus and diagnostic characters are provided. Molecular analysis of a fragment of the COI 5’-end was employed to support the morphological species concept. Differences from closely related species based on molecular and morphological data are discussed. First records of A. tamaraw Freitag, 2013 from Luzon are reported. Full article

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22 pages, 3087 KiB

Open AccessArticle

Change Detection from Remote Sensing to Guide OpenStreetMap Labeling

by Conrad M. Albrecht, Rui Zhang, Xiaodong Cui, Marcus Freitag, Hendrik F. Hamann, Levente J. Klein, Ulrich Finkler, Fernando Marianno, Johannes Schmude, Norman Bobroff, Wei Zhang, Carlo Siebenschuh and Siyuan Lu

ISPRS Int. J. Geo-Inf. 2020, 9(7), 427; https://doi.org/10.3390/ijgi9070427 - 2 Jul 2020

Cited by 15 | Viewed by 7888

Abstract

The growing amount of openly available, meter-scale geospatial vertical aerial imagery and the need of the OpenStreetMap (OSM) project for continuous updates bring the opportunity to use the former to help with the latter, e.g., by leveraging the latest remote sensing data in combination with state-of-the-art computer vision methods to assist the OSM community in labeling work. This article reports our progress to utilize artificial neural networks (ANN) for change detection of OSM data to update the map. Furthermore, we aim at identifying geospatial regions where mappers need to focus on completing the global OSM dataset. Our approach is technically backed by the big geospatial data platform Physical Analytics Integrated Repository and Services (PAIRS). We employ supervised training of deep ANNs from vertical aerial imagery to segment scenes based on OSM map tiles to evaluate the technique quantitatively and qualitatively. Full article

(This article belongs to the Special Issue OpenStreetMap as A Multi-Disciplinary Nexus: Perspectives, Practices and Procedures)

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11 pages, 1745 KiB

Open AccessArticle

A Rapid and Accurate MinION-Based Workflow for Tracking Species Biodiversity in the Field

by Simone Maestri, Emanuela Cosentino, Marta Paterno, Hendrik Freitag, Jhoana M. Garces, Luca Marcolungo, Massimiliano Alfano, Iva Njunjić, Menno Schilthuizen, Ferry Slik, Michele Menegon, Marzia Rossato and Massimo Delledonne

Genes 2019, 10(6), 468; https://doi.org/10.3390/genes10060468 - 20 Jun 2019

Cited by 90 | Viewed by 13494

Abstract

Genetic markers (DNA barcodes) are often used to support and confirm species identification. Barcode sequences can be generated in the field using portable systems based on the Oxford Nanopore Technologies (ONT) MinION sequencer. However, to achieve a broader application, current proof-of-principle workflows for on-site barcoding analysis must be standardized to ensure a reliable and robust performance under suboptimal field conditions without increasing costs. Here, we demonstrate the implementation of a new on-site workflow for DNA extraction, PCR-based barcoding, and the generation of consensus sequences. The portable laboratory features inexpensive instruments that can be carried as hand luggage and uses standard molecular biology protocols and reagents that tolerate adverse environmental conditions. Barcodes are sequenced using MinION technology and analyzed with ONTrack, an original de novo assembly pipeline that requires as few as 1000 reads per sample. ONTrack-derived consensus barcodes have a high accuracy, ranging from 99.8 to 100%, despite the presence of homopolymer runs. The ONTrack pipeline has a user-friendly interface and returns consensus sequences in minutes. The remarkable accuracy and low computational demand of the ONTrack pipeline, together with the inexpensive equipment and simple protocols, make the proposed workflow particularly suitable for tracking species under field conditions. Full article

(This article belongs to the Special Issue MetaGenomics Sequencing In Situ)

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