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Fig 9 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 9. Macrocypraea cervus anatomy. (A) Foregut, left view, some structures deflected, (B) Same, ventral view, opened longitudinally, odontophore removed. Scales = 5 mm. https://doi.org/10.1371/journal.pone.0225963.g009

Fig 8 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 8. Macrocypraea cervus anatomy. (A) Whole specimen extracted from shell, left view, visceral mass slightly deflected upwards. (B) Head-foot, male, right view.; (C) Pallial roof and visceral mass, ventral view, portion of gill ventral to pericardium removed, anterior region of digestive gland (dg) and hypobranchial gland (HG) partially sectioned transversally, transverse section of indicated region of capsule gland (cg) also shown. (D) Right mantle lobe, middle region, outer view. (E) Head, ventral view, foot and columellar muscle removed. Scales = 5 mm. https://doi.org/10.1371/journal.pone.0225963.g008

Fig 3 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 3. Macrocypraea spp shells and in situ. (A-D) M. mammoth paratype MZSP 108077 (L 95.8 mm). (A) Dorsal view. (B) Apertural view. (C) Right view. (D) Left view. E) M. mammoth MZSP 108079 subadult specimen (L 80.4 mm), dorsal view. (F) Same, apertural view. (G) M. cervus MZSP 8149, from Mexico (L 152.9 mm), Apertural view. (H) Same, dorsal view. (I-K) M. cervus ANSP 93276, from Florida (L 129.4 mm). (I) Apertural view. (J) Dorsal view (broken). (K) Same, specimen and dorsal shell wall removed. (L) Alive paratypes in situ.; (M) Alive holotype in situ. (N-P) M. cervus, MZSP 115362, from Cuba (L 98.5 mm). (N) Apertural view. (O) Dorsal view. (P) Right view. https://doi.org/10.1371/journal.pone.0225963.g003

Fig 1 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 1. Schematic map of Americas showing approximate extension of the four studied species, color as indicated. https://doi.org/10.1371/journal.pone.0225963.g001

Fig 7 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 7. Macrocypraea mammoth anatomy. (A) Female genital system and adjacent structures as in situ, ventral view, transverse section artificially done in middle region of pallial oviduct, ovary (oy) only partially shown, kidney not shown in details. (B) Foregut, ventral view, opened longitudinally, odontophore (od) deflected to left. (C) Anterior male genital structures, dorsal view, topology of right tentacle (te) also shown. (D) Detail of middle region of pallial oviduct, dorsal view, bursa copulatrix (bc) artificially sectioned in two regions. Scales = 5 mm. https://doi.org/10.1371/journal.pone.0225963.g007

Fig 12. Macrocypraea, 3D in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 12. Macrocypraea, 3D reconstructions of shells (CT-Scan). (A-F) M. cervinetta MZSP 131503 (L 58 mm). (A) Frontal view. (B) Same, more ventral portions removed. (C) Anterior view; (D) Posterior view. (E) Right view, right half removed. (F) Same, longitudinal section along columellar axis. (G-L) M. zebra MZSP 38946 (L 100 mm). (G) Frontal view. (H) Same, more ventral portions removed. (I) Anterior view. (J) Posterior view. (K), Right view, right half removed. (L) Same, longitudinal section along columellar axis. https://doi.org/10.1371/journal.pone.0225963.g012

Fig 11. Macrocypraea cervus, 3D in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 11. Macrocypraea cervus, 3D reconstructions of shell (CT-Scan) MZSP 121238 (L 98.5 mm). (A) Frontal view. (B) Same, more ventral portions removed. (C) Anterior view.(D) Posterior view. (E), Right view, right half removed. (F) Same, longitudinal section along columellar axis.

Fig 10 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 10. Macrocypraea cervus anatomy. (A) Visceral mass, male, ventral view, partially uncoiled. (B) Right region of pallial cavity floor and penis, dorsalslightly posterior view, transverse section in two indicated regions also shown. (C) Central nervous system, ventral view. Scales = 5 mm. https://doi.org/10.1371/journal.pone.0225963.g010

Fig 5 in A new species of Macrocypraea (Gastropoda, Cypraeidae) from Trindade Island, Brazil, including phenotypic differentiation from remaining congeneric species

Fig 5. Macrocypraea mammoth anatomy. (A) Head-foot, male, right view. (B) Pallial roof and visceral mass, ventral view, portion of gill ventral to pericardium removed. Scales = 10 mm. https://doi.org/10.1371/journal.pone.0225963.g005

opencc-by-4.0Dec 2010View details →

Fig. 4 in MORPHOLOGICALAND GENETIC DIFFERENTIATION OF SAXIFRAGA HIRCULUS L. (SAXIFRAGACEAE) POPULATIONS IN LITHUANIA Edita Meškauskaitė, Donatas Naugžemys, Donatas Žvingila, Jonas Remigijus

Fig. 4. UPGMA dendrogram of genetic relationships among 20 S. hirculus individuals from Merkinė population

opencc-by-4.0Feb 2024View details →

Figure 3 in Confirmation and differential metabolism associated with quinclorac resistance in smooth crabgrass (Digitorio ischoemum)

Figure 3. Cyanide content of susceptible and resistant Digitorio ischoemum at 3 d after treatment. Data were expressed as a percentage increase of the mean control. Error bars indicate the standard error of the mean. R, resistant; S, susceptible.

opencc-by-4.0May 2023View details →

Differential abundance and gene set enrichment in plasma of cancer patients versus controls

Version update: Human Protein Atlas v23 used for gene set enrichment analysis (instead of Human Protein Atlas v18) DESeq2 differential abundance output for genes with q < 0.05 and |log2 fold change| > 1 in cancer vs control plasma samples: <ul> <li>differentialabundance_pancancer.txt: tables with differentially abundant genes (|log2(fold change)|>1 and adjusted p>0.05) per cancer-control comparison (cancertype) in a pan-cancer plasma sample cohort (25 locally advanced to metastatic cancer types - 7 or 8 patients per type - vs 8 cancer-free control donors)</li> <li>differentialabundance_threecancer.txt: tables with differentially abundant genes (|log2(fold change)|>1 and adjusted p>0.05) per cancer-control comparison (cancertype) in the three-cancer plasma cohort (ovarian, prostate and uterine cancer - 11 or 12 patients per type - vs 20 cancer-free controls) <ul> <li>Gene_id: Ensembl gene id (GChr38 v91); baseMean: mean of normalized counts for all samples; log2FoldChange: log2 fold change for cancer vs control; lfcSE: standard error for cancer vs control; stat: Wald statistic for cancer vs control; pvalue: Wald test p-value for cancer vs control; padj: Benjamini-Hochberg corrected p-value; cancertype: respective cancer type abbreviation of cancer patient plasma samples that were compared to plasma samples of controls.</li> </ul> </li> </ul> Gene set enrichment analyses based on fold change ranked gene lists (cancer versus control) - results obtained with fgea (v1.22.0): <ul> <li>customgenesets.txt: custom gene set lists based on RNA Atlas (&Human Protein Atlas), Tabula Sapiens, GTEX, TCGA data. <ul> <li>Reference: reference to create gene sets (including RNA Atlas, Human Protein Atlas, Tabula Sapiens, GTEX, and TCGA); set: set name; genes: gene list for set</li> </ul> </li> <li>GSEA_pancancer.txt & GSEA_threecancer.txt: gene set enrichment results based on fold change ranked gene list (specific cancer type versus controls) in pan-cancer cohort and three-cancer cohort, respectively <ul> <li>Sets: gene set category (HALLMARK and KEGG: Hallmark and Canonical Pathways gene sets obtained from MSigDB (v2022.1); CUSTOM: custom tissue and cell type specific gene sets as defined in customgenesets.txt); pathway: pathway/set name; pval: enrichment p-value; padj: Benjamini-Hochberg adjusted p-value; log2err: expected error for the standard deviation of the P-value logarithm; ES: enrichment score, same as in Broad GSEA implementation; NES: enrichment score normalized to mean enrichment of random samples of the same size; size: size of the pathway after removing genes without statistic values; leadingEdge: leading edge genes that drive the enrichment; Disease: respective cancer type abbreviation of cancer patient plasma samples that were compared to plasma samples of controls</li> </ul> </li> </ul>

opencc-by-4.0Oct 2020View details →

FIGURE 5 in Genetic differentiation through dispersal and isolation in two freshwater fish species from coastal basins of Northeastern Brazil

FIGURE 5 | Time-calibrated phylogeny for samples of Prochilodus lacustris from Maranhão coastal basins and Tocantins basin. Time is in thousands of years. The color bars in the tree correspond to the populations presented in Fig. 3A.

opencc-by-4.0Oct 2020View details →

FIGURE 4 in Genetic differentiation through dispersal and isolation in two freshwater fish species from coastal basins of Northeastern Brazil

FIGURE 4 | Time-calibrated phylogeny for samples of Schizodon dissimilis from coastal basins of northeastern Brazil. Time is in thousands of years. The color bars in the tree correspond to the populations presented in Fig. 2A.

opencc-by-4.0Oct 2020View details →

FIGURE 3 in Genetic differentiation through dispersal and isolation in two freshwater fish species from coastal basins of Northeastern Brazil

FIGURE 3 | Distribution and haplotype structure of Prochilodus lacustris. A. Paleodrainage reconstruction of coastal basins from northeastern Brazil and geographic distribution of groups defined by SAMOVA. B. Estimate of the probable groups of populations produced by the BAPS. C. Haplotypes networks of mtDNA control region. All analysis recovered a total of six groups in this area, but the SAMOVA do not identify the same groups that other analysis. The colors used to highlight areas in the network correspond to populations in map.

Fig. 1 in Functional differentiation between fish assemblages from forested and deforested streams

Fig. 1. Map of the study area, showing: the state of São Paulo (A); and the rio São José dos Dourados basin (B), where the forested streams (black circles), which were located in the largest forest fragments of the river basin (grey areas), and the deforested streams (grey circles) were located (C).

Fig. 3 in Functional differentiation between fish assemblages from forested and deforested streams

Fig. 3. Identification of the functional groups defined by partitions #30 and #33, with their respective trends of change in species abundance as a function of deforestation. The dominant traits of the functional groups that were important for stream differentiation according to the DPCoA (Fig. 4) are also shown. Species names are abbreviated according to Table 2.

Fig. 2 in Functional differentiation between fish assemblages from forested and deforested streams

Fig. 2. Dendrogram of the functional similarities of the 35 fish species included in the analyses. Mean species abundances within the forested (F1-F3) and deforested (D1-D3) streams are represented by the sizes of the black squares. Species names are abbreviated according to Table 2.

Fig. 4 in Functional differentiation between fish assemblages from forested and deforested streams

Fig. 4. Double Principal Coordinate Analysis (DPCoA) biplot ordination, describing the functional differences between forested (F1-F3) and deforested (D1-D3) streams. Black circles indicate each species, and their relative positions reflect their functional dissimilarities. Species are linked according to the functional groups originating from partitions #33 (a) and #30 (b). Species identities and their functional traits are shown in Fig. 3.