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Supplementary material 5 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Table S5. Data set of the ITS2 barcode.: Explanation note: Data set of the ITS2 barcode.
Supplementary material 4 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Table S4. Data set of the ITS1 barcode.: Explanation note: Data set of the ITS1 barcode.
Figure 49. Pachyula crassilabris, AMS B 9961 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 49. Pachyula crassilabris, AMS B 9961, New Guinea, type species of the genus.
Figure 52. Pauparius latirostris, AMS I 9072 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 52. Pauparius latirostris, AMS I 9072, New Guinea, type species of the genus.
Figure 36. Osteogeneiosus militaris, UMMZ 214628 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 36. Osteogeneiosus militaris, UMMZ 214628, Indo-West Pacific, type species of the genus.
Figure 34. Ketengus typus, ANSP 60704 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 34. Ketengus typus, ANSP 60704, eastern Indian Ocean, type species of the genus.
Figure 53. Potamosilurus macrorhynchus, ZMA 111086 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 53. Potamosilurus macrorhynchus, ZMA 111086, New Guinea, type species of the genus.
Figure 21. Carlarius heudelotii, MNHN B-0689 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 21. Carlarius heudelotii, MNHN B-0689, western-central Africa, type species of the genus.
Figure 6. Bagre bagre, LBP 30215 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 6. Bagre bagre, LBP 30215, western Atlantic, type species of the genus.
Figure 11. Notarius grandicassis, MNHN A-4608 in A new classification of the family Ariidae (Osteichthyes: Ostariophysi: Siluriformes) based on combined analyses of morphological and molecular data
Figure 11. Notarius grandicassis, MNHN A-4608, Atlantic South America, type species of the genus.
FIGURE 4 in Apios chendezhaoana (Fabaceae), an overlooked species and a new combination from China: evidence from morphological and molecular analyses
FIGURE 4. Geographical distribution of Apios chendezhaoana. Prepared by Dr. Rui-Wu Zhou.
Fig. 21 in Phylogenetic Studies On Didelphid Marsupials Ii. Nonmolecular Data And New Irbp Sequences: Separate And Combined Analyses Of Didelphine Relationships With Denser Taxon Sampling
Fig. 21. Strict consensus of 34 equally mostparsimonious trees obtained by a heuristic analysis of the combined data (nonmolecular characters plus IRBP2) described in this report. Bremer support and bootstrap values are provided above and below each branch, respectively. Outgroup taxa are indicated with asterisks. Parsimonyequivalent resolutions of the basal ingroup polytomy are illustrated in figure 19D, E, and F. Parsimonyequivalent resolutions of the ''other Marmosa'' + Micoureus polytomy are shown in figure 22.
Figure 5 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 5 - Global Nonmetric Multidimensional Scaling (NMDS) graph demonstrating the relative placement of samples (lower case letters, encoded in Suppl. material 1) in the ordination space. 95% confidence ellipses are indicated for each barcode-primer pair combination. For two-dimensional solution, stress=0.191 (R2=0.875).
Figure 2 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 2 - Sample-based OTU richness as recovered by different barcode-primer pair combinations. Error bars denote standard error; different letters indicate statistically different groups.
Figure 1 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 1 - Map of ribosomal DNA indicating variable regions as well as primers used and/or discussed in this study. Primers pairs used for HTS are highlighted.
Figure 3 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 3 - Rarefied OTU accumulation curves for samples based on the (a) ITS1 and (b) ITS2 barcodes and their 95% confidence intervals.
Figure 6 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 6 - Relative abundance of fungal classes in the amplicon and metagenomics data sets divided into SSU, ITS, and LSU subsets averaged over different barcodes (amplicon data) and 14 shared samples. Asterisks in the margins indicate significant differences in recovery of classes among SSU, ITS, and LSU of metagenomics (right) and amplicon (left) data sets. Asterisks in the center indicate significant differences between the metagenomics and amplicon-bases approaches.
Figure 7 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 7 - Differences in sequence length in the ITS1 and ITS2 barcodes of 16 most abundant fungal classes as revealed based on amplicon libraries in this study. Columns, asterisks, and error bars represent mean and median values and standard deviation, respectively. Numbers inside bars indicate the number of sequences analyzed (n). Taxa are ordered by average length of the ITS1 region.
Figure 4 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852
Figure 4 - Relationship between connectance and adjusted coefficient of determination (R2adj) for floristic variables across different barcode-primer pair combinations based on (a) Bray-Curtis distance and (b) Hellinger distance. Pointed line indicates correlation in the ITS1Fngs-ITS2 data set (filled circles), covering eight connectance classes (C<0.45). Open circles, other ITS1 and ITS2 primer pairs; triangles, SSU barcodes; rectangles, LSU barcodes.
Data from: More taxa or more characters revisited: combining data from nuclear protein-encoding genes for phylogenetic analyses of Noctuoidea (Insecta: Lepidoptera)
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