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opencc-by-4.0Aug 2020View details →

Fig. 2 in A novel quantitative real-time PCR diagnostic assay for fecal and nasal swab detection of an otariid lungworm, Parafilaroides decorus

Fig. 2. Standard curve based on sensitivity data. A 95% confidence interval for the linear regression model is shaded in grey.

opencc-by-4.0Aug 2020View details →

Fig. 1. Repeat family selection for the P. decorus diagnostic assay. A in A novel quantitative real-time PCR diagnostic assay for fecal and nasal swab detection of an otariid lungworm, Parafilaroides decorus

Fig. 1. Repeat family selection for the P. decorus diagnostic assay. A. Number of sequencing reads for P. decorus compared to outgroup species reads for each repeat family (1–104) on a log scale. Arrows indicate repeat families with no reads from the outgroup species. Plot was made using Tableau Software, 2019. B. Within a cluster, reads with similar sequences are closer together. Edges connect a read with its closest match (creating a pair) and the length of this edge represents the amount of overlap between the reads. The mean edge width provides context for the lengths in the cluster, so in a cluster with a larger mean edge width the edges are actually longer than edges in a cluster with a smaller mean edge width. Reads therefore may be distant because of sequence divergence, or in the case of a long repeat (more than 150 base pairs), because of a lack of overlap between reads. However, because there will likely be continuous reads covering different regions of the repeat, these longer repeats should still appear as a tight, though possibly larger, cluster. Read dots that stray from the central cluster most likely represent sequence divergence. Higher density therefore indicates lower sequence divergence.

opencc-by-4.0Apr 2017View details →

Fig. 3 in A new occurrence of Dakotasuchus kingi from the Late Cretaceous of Utah, USA, and the diagnostic utility of postcranial characters in Crocodyliformes

Fig. 3. Comparative morphology of coracoids (A–D) and dorsal scutes E–H) in coelognathosuchians from the medial Cretaceous of North America. Right coracoids in lateral view and right dorsal scutes in ventral view. A, E. Dakotasuchus kingi Mehl, 1941, OMNH 34500, Mussentuchit Member of the Cedar Mountain Formation (Cenomanian), Utah, USA. B, F. Dakotasuchus kingi Mehl, 1941, KWU uncatalogued (holotype), Dakota Formation (Cenomanian), Kansas, USA. C, G. Woodbinesuchus byersmauricei Lee, 1997, SMU 74626 (holotype), Woodbine Formation Cenomanian), Texas, USA. D, H. Terminonaris robusta Wu, Russell, and Cumbaa, 2001, SMNH P2411.1 (coracoid is inverted), Keld Member of the Favel Formation (Turonian), Saskatchewan, Canada. Images modified from Mehl (1941), Lee (1997), and Wu et al. (2001). Images are not to scale.

opencc-by-4.0Apr 2017View details →

Fig. 2. Representative elements ofgoniopholidid crocodyliform Dakotasuchus kingi Mehl, 1941, OMNH 34500 from OMNH locality V828 in A new occurrence of Dakotasuchus kingi from the Late Cretaceous of Utah, USA, and the diagnostic utility of postcranial characters in Crocodyliformes

Fig. 2. Representative elements ofgoniopholidid crocodyliform Dakotasuchus kingi Mehl, 1941, OMNH 34500 from OMNH locality V828, Mussentuchit Member, Cedar Mountain Formation, Cenomanian. A. Right cervical rib in ventral (A1) and dorsal (A2) views. B. Right coracoid in lateral (B1), caudal (B2), and medial (B3) views. C. Dorsal vertebra in cranial (C1), caudal (C2), lateral (C3), and dorsal (C4) views. D. Right radius in medial (D1) and lateral (D2) views. E. Dorsal scute in dorsal (E1) and ventral (E2) views. F. Ventral scute in dorsal (F1) and ventral (F2) views. G. Close-up views of neural canal in dorsal vertebrae, illustrating distinctive heart shape (white arrows); G1, OMNH 34500 vertebra in caudal view; G2, D. kingi holotype vertebra mold in cranial view. H. Tooth in labiolingual (H1), basal (H2), and mesiodistal (H3) views.

opencc-by-4.0Apr 2017View details →

Fig. 1 in A new occurrence of Dakotasuchus kingi from the Late Cretaceous of Utah, USA, and the diagnostic utility of postcranial characters in Crocodyliformes

Fig. 1. Map of the western United States (A) with the approximate locations of the holotype in Salina, Kansas (KWU uncatalogued; circle) and referred specimen in Emery County, Utah (OMNH 34500; star) and map of Emery County (B) with the approximate location of V868 (star) and the distribution of the Mussentuchit Member (grey area) (modified from Cifelli et al. 1999).

Fig. 4 in Giardia duodenalis in a clinically healthy population of captive zoo chimpanzees: Rapid antigen testing, diagnostic real-time PCR and faecal microbiota profiling

Fig. 4. | Faecal bacterial community profile of captive chimpanzees infected with Giardia duodenalis detected by rapid antigen test. (A) Relative abundance of colour coded bacterial phyla separated based on presence (+) or absence (‒) of Giardia using rapid antigen test (RAT). The sample identity is located at the bottom of the graph with two labels (C20, C3) shaded indicating samples that were found as Giardia positive by real-time PCR. (B) Alpha diversity based on observed OTU and Shannon's index plotted as box plot and evaluated using t-tests. (C) Principal coordinates analysis (PCoA) 2D plot using first two principal components from Bray-Curtis dissimilarity matrix at the genus taxonomic levels. The clustering between Giardia positive (RAT+) and negative (RAT-) samples was tested using ANOSIM. (D) Linear discriminant analysis effect size (LEfSe) used plot of significant factors discriminating G. duodenalis positive from negative sample. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)

Fig. 3 in Giardia duodenalis in a clinically healthy population of captive zoo chimpanzees: Rapid antigen testing, diagnostic real-time PCR and faecal microbiota profiling

Fig. 3. | Faecal bacterial community profile of captive chimpanzees infected with Giardia duodenalis as detected by rapid antigen test and real-time PCR combined. (A) Relative abundance of colour coded bacterial phyla separated based on presence (+) or absence (‒) of Giardia. The sample identity is located at the bottom of the graph. (B) Alpha diversity based on observed OTU and Shannon's index plotted as box plot and evaluated using t-tests. (C) Principal coordinates analysis (PCoA) 2D plot using first two principal components from Bray-Curtis dissimilarity matrix at the genus taxonomic levels. The clustering between Giardia positive (+) and negative (‒) samples was tested using ANOSIM. (D) Linear discriminant analysis effect size (LEfSe) used plot of significant factors discriminating G. duodenalis positive from negative sample. (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)

Fig. 2 in Giardia duodenalis in a clinically healthy population of captive zoo chimpanzees: Rapid antigen testing, diagnostic real-time PCR and faecal microbiota profiling

Fig. 2. | Results of Giardia duodenalis rapid antigen test applied on faecal samples from chimpanzees. A positive result for the Giardia duodenalis rapid antigen test (RAT, Anigen Rapid Giardia AG Test Kit) is represented by the line in the 'T' position in the window along with the positive control line in the 'C' position.

Fig. 1 in Giardia duodenalis in a clinically healthy population of captive zoo chimpanzees: Rapid antigen testing, diagnostic real-time PCR and faecal microbiota profiling

Fig. 1. Captive chimpanzees and their enclosure in Sydney, Australia. (A) Main chimpanzee open air exhibit with multiple climbing structures. (B) View from the other direction showing entry to the indoor area at the end of the exhibit. (C) smaller exhibit with mesh covering and more climbing and sleeping structures. (D) Members of the chimpanzee troop at the Taronga Zoo.

opencc-by-4.0Apr 2023View details →

Fig. 2 in Application of a universal parasite diagnostic test to biological specimens collected from animals

Fig. 2. Cluster dendrogram showing parasite species detected in mammalian hosts. Sequences detected in each specimen using nUPDx were clustered alongside parasite-derived reference sequences of known identity obtained from GenBank. These reference sequences are labelled on the dendrogram branch tips (where appropriate). A peripheral color-coded heat map ring indicates the host animal from which the parasite-derived sequence was detected. Gray branches and blocks on the heat map reflect the position of reference sequences within the tree. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)

opencc-by-4.0Apr 2023View details →

Fig. 1 in Application of a universal parasite diagnostic test to biological specimens collected from animals

Fig. 1. Schematic describing the nested UPDx protocol employed in this study. This schematic provides a summary of the nested UPDx (nUPDx) protocol originally described by Flaherty et al. (Flaherty et al., 2021). Briefly, the DNA extract is subjected to a restriction digestion using the PstI restriction enzyme, and the digest product is subjected to PCR1 using primers 5'TTGATCCTGC- CAGTAGTCATATGC'3 (outer forward) and 5'GGTGTGTA- CAAAGGGCAGGGAC'3 (outer reverse). The resultant ~2 kb amplicon is digested using the restriction enzymes BamHI and BsoBI. The digest product is then subjected to PCR2 using internal primers 5'CCGGAGAGGGAGCCTGAGA'3 (inner forward) and 5'GAGCTGGAATTACCGCGG'3 (inner reverse) originally described by Flaherty et al. (Flaherty et al., 2018, 2021). The amplicon of PCR2 (~200 base pairs) is finally subjected to Illumina amplicon sequencing.

opencc-by-4.0Apr 2023View details →

Fig. 3 in Application of a universal parasite diagnostic test to biological specimens collected from animals

Fig. 3. Cluster dendrogram showing parasite species detected in avian and reptilian hosts. Sequences detected in each specimen using nUPDx were clustered in this dendrogram alongside parasite-derived reference sequences of known identity obtained from GenBank. These reference sequences are labelled on the dendrogram branch tips (where appropriate). A peripheral color-coded heat map ring indicates the host animal from which the parasite-derived sequence was detected. Gray branches and blocks on the heat map reflect the position of reference sequences within the tree. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)

opencc-by-4.0Jun 2023View details →

Fig. 2 in Applications of molecular diagnostics for quality control in rearing of Spodoptera frugiperda (Lepidoptera: Noctuidae) larvae for experimental use

Fig. 2. Relative abundance of diversity of viruses found in the metagenomic analysis of dead and healthy larvae of Spodoptera frugiperda.

opencc-by-4.0Jun 2023View details →

Fig. 1 in Applications of molecular diagnostics for quality control in rearing of Spodoptera frugiperda (Lepidoptera: Noctuidae) larvae for experimental use

Fig. 1. Relative abundance of bacterial diversity found in samples of healthy (LH1 and LH2) and dead larvae (LD1 and LD2) of Spodoptera frugiperda.

Linked collectors and determiners for: Diagnostics and updated catalogue of Acalyptris Meyrick, the second largest genus of Nepticulidae (Lepidoptera) in the Americas.

Natural history specimen data linked to collectors and determiners held within, "Diagnostics and updated catalogue of Acalyptris Meyrick, the second largest genus of Nepticulidae (Lepidoptera) in the Americas". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/e15a5b4c-9199-4679-afdf-1a08dd1cd564">https://bionomia.net/dataset/e15a5b4c-9199-4679-afdf-1a08dd1cd564</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/e15a5b4c-9199-4679-afdf-1a08dd1cd564">https://gbif.org/dataset/e15a5b4c-9199-4679-afdf-1a08dd1cd564</a>. Formatted as a Frictionless Data package.

Linked collectors and determiners for: New records and diagnostic notes on large carpenter bees (Hymenoptera: Apidae: genus Xylocopa Latreille), from the Amazon River basin of South America.

Natural history specimen data linked to collectors and determiners held within, "New records and diagnostic notes on large carpenter bees (Hymenoptera: Apidae: genus Xylocopa Latreille), from the Amazon River basin of South America". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/e23922d1-6f43-4280-8ac6-131767dc4464">https://bionomia.net/dataset/e23922d1-6f43-4280-8ac6-131767dc4464</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/e23922d1-6f43-4280-8ac6-131767dc4464">https://gbif.org/dataset/e23922d1-6f43-4280-8ac6-131767dc4464</a>. Formatted as a Frictionless Data package.

Linked collectors and determiners for: A Gondwanan concept of Simplimorpha Scoble (sensu lato): a step toward clarity in the generic diagnostics of global Nepticulidae (Lepidoptera).

Natural history specimen data linked to collectors and determiners held within, "A Gondwanan concept of Simplimorpha Scoble (sensu lato): a step toward clarity in the generic diagnostics of global Nepticulidae (Lepidoptera)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/3dad7d04-f7c6-4300-9240-8f2e44d0c257">https://bionomia.net/dataset/3dad7d04-f7c6-4300-9240-8f2e44d0c257</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/3dad7d04-f7c6-4300-9240-8f2e44d0c257">https://gbif.org/dataset/3dad7d04-f7c6-4300-9240-8f2e44d0c257</a>. Formatted as a Frictionless Data package.

Linked collectors and determiners for: Diagnostics of new species of Neotropical Tischeriidae (Lepidoptera), with the first record of Coptotriche Walshingham from South America.

Natural history specimen data linked to collectors and determiners held within, "Diagnostics of new species of Neotropical Tischeriidae (Lepidoptera), with the first record of Coptotriche Walshingham from South America". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/3658273a-3bc4-40c8-a44a-4c32f353d3f4">https://bionomia.net/dataset/3658273a-3bc4-40c8-a44a-4c32f353d3f4</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/3658273a-3bc4-40c8-a44a-4c32f353d3f4">https://gbif.org/dataset/3658273a-3bc4-40c8-a44a-4c32f353d3f4</a>. Formatted as a Frictionless Data package.

opencc-zeroOct 2024View details →

Linked collectors and determiners for: Insect Diversity and Diagnostics.

Natural history specimen data linked to collectors and determiners held within, "Insect Diversity and Diagnostics". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/d55073b8-f5a0-46e3-89e3-9519c57b0316">https://bionomia.net/dataset/d55073b8-f5a0-46e3-89e3-9519c57b0316</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/d55073b8-f5a0-46e3-89e3-9519c57b0316">https://gbif.org/dataset/d55073b8-f5a0-46e3-89e3-9519c57b0316</a>. Formatted as a Frictionless Data package.