Detection of the amphibian pathogen Batrachochytrium dendrobatidis on spadefoots in the Kamloops region
Notice bibliographique
Résumé
Batrachochytrium dendrobatidis is a species of chytrid fungus responsible for the decline and extinction of amphibian populations worldwide (Longcore 1999 and others). Recently, B. dendrobatidis has been detected on western toads (Bufo boreas) in southwestern British Columbia (Deguise & Richardson 2009) and has therefore become a concern for conservationists across the province. Chytrid DNA can be extracted from tissue samples, skin swabs, and water bodies and subsequently detected using real time PCR techniques. It is currently unknown whether the chytrid fungus is affecting amphibian populations in the Kamloops area. This project aimed to first validate an effective real time PCR assay for detecting the presence of the amphibian pathogen B. dendrobatidis, and second to employ this real time PCR assay to detect B. dendrobatidis on experimental samples collected in the Kamloops region.\nSpecifically, spadefoots were captured during the summer of 2013 from the New Afton mining site located south of Kamloops, BC. A total of 78 spadefoots were captured, swabbed, and subsequently weighed, measured and released. Parameters for optimizing an effective real time PCR assay were tested to detect B. dendrobatidis in experimental samples; initially a Taqman assay was tried, but due to a lack of success, a SYBR Green assay was used. DNA was extracted from all samples and 30 of these samples were tested for B. dendrobatidis using the SYBR Green assay and gel electrophoresis.\nB. dendrobatidis DNA was not detected in any of the 30 experimental samples. Melt curve analysis indicated the presence of multiple PCR products, products which were observed by gel electrophoresis at lengths less than 150 base pairs. It is possible that non-specific primer binding occurred, or that primer dimers formed, at low template DNA concentrations as these bands were not observed above 42 standard DNA copy numbers. Based on the results in hand, it is possible that (1) chytrid is not present in the ponds at New Afton mine, (2) chytrid is present but is not affecting the spadefoots, (3) the sensitivity of the SYBR Green assay was not sufficient to detect chytrid DNA, (4) PCR inhibitors interfered with the detection of chytrid DNA on samples, and (5) chytrid DNA did not adhere to the swabs that were used in this work. Future research should employ swabs with smaller tips and employ the more sensitive Taqman assay using a probe with a non-flourescent quencher (NFQ) as opposed to a black-hole quencher (BHQ-1) that was used here.
Récupéré en direct depuis OpenAlex et désinversé. Les résumés ne sont pas conservés dans cette base de données : les index inversés représentent 8,6 Go des 9,3 Go de texte de la base, et le serveur dispose de 13 Go libres.
Comment cette classification a été obtenuedéplier
Prédiction distillée sur la base complète
Imitation des enseignantsNi prévalence calibrée, ni vérité terrain. Validation humaine à venir. Apprise à partir de 10 348 étiquettes directes de Codex et de 10 348 étiquettes directes de Gemma. Le mode candidate est l'union des têtes enseignantes seuillées; le consensus est leur intersection. Ces sorties portent le statut machine_predicted_unvalidated et ne sont ni des étiquettes humaines ni des étiquettes directes de modèles de pointe.
Scores Codex et Gemma par catégorie
| Catégorie | Codex | Gemma |
|---|---|---|
| Métarecherche | 0,000 | 0,000 |
| Méta-épidémiologie (sens strict) | 0,000 | 0,000 |
| Méta-épidémiologie (sens large) | 0,000 | 0,000 |
| Bibliométrie | 0,000 | 0,001 |
| Études des sciences et des technologies | 0,000 | 0,000 |
| Communication savante | 0,000 | 0,000 |
| Science ouverte | 0,001 | 0,000 |
| Intégrité de la recherche | 0,000 | 0,001 |
| Charge utile insuffisante (le modèle a refusé de juger) | 0,070 | 0,000 |
Scores machine (provisoires)
Les deux têtes enseignantes du modèle étudiant, lues sur ce travail. Un score ordonne la base pour la relecture; il n'affirme jamais une catégorie, et le statut de validation accompagne chaque rangée tel quel.
Scores de référence d'un modèle non mature (critères de maturité non atteints, 7 itérations). Un score ordonne; il n'affirme jamais une catégorie.
score_only:v0-immature-baseline · tel quel depuis la passe de notation : score_only signifie que le nombre peut ordonner les travaux, et qu'aucune étiquette de catégorie n'en découleClassification
machine, non validéePrédiction automatique; un appel candidat d’une seule tête enseignante, pas un consensus.
Le détail, modèle par modèle et score par score, se trouve en fin de page sous « Comment cette classification a été obtenue ».