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opencc-by-4.0Sep 2019View details →

Genus level DNA sequence data for three genes (matK, rbcL, trnH-psbA) for the paper: A comprehensive, genus-level time-calibrated phylogeny of the tree flora of Mediterranean Europe and an assessment of its vulnerability

This data file contains the consensus DNA sequences in fasta format, of 64 tree genera found in Mediterranean Europe, following the checklist of Médail et al. (2019).  The data are used in a manuscript submitted for publication to Botany Letters and currently under revision. The manuscript is entitled: "A comprehensive, genus-level time-calibrated phylogeny of the tree flora of Mediterranean Europe and an assessment of its vulnerability". Its authors are: Marwan Cheikh Albassatneh, Marcial Escudero, Loic Ponge*, Anne-Christine Monnet, Juan Arroyo, Toni Nikolic, Gianluigi Bacchetta, Francesca Bagnoli, Panayotis Dimopoulos, Agathe Leriche, Frédéric Médail, Anne Roig, Ilaria Spanu, Giovanni Giuseppe Vendramin, Arndt Hampe, Bruno Fady.

Profile Comparer Extended: phylogeny of LPMO families using profile hidden Markov model alignments

searchable pdf phylogenetic tree (Fig S1) and sequence data (Table S1) belonging to the paper "Profile Comparer Extended: phylogeny of LPMO families using profile hidden Markov model alignments"

Data for: Whole genome phylogeny of Gallus: Introgression and data-type effects

Multiple sequence alignments and gene trees from the manuscript "Whole genome phylogeny of Gallus: Introgression and data-type effects." The zip file contains a single folder with a README file that provides details the contents and formats of the files that are included.

Fig. 9. t in Mysterious chokeberries: new data on the diversity and phylogeny of Aronia Medik. (Rosaceae)

Fig. 9. t-SNE ordination of the combined morphology + geometric morphometrics data.

Fig. 8 in Mysterious chokeberries: new data on the diversity and phylogeny of Aronia Medik. (Rosaceae)

Fig. 8. Ordination from the principal component analysis of relative warps.

Fig. 1 in Mysterious chokeberries: new data on the diversity and phylogeny of Aronia Medik. (Rosaceae)

Fig. 1. ML tree resulted from the analysis of concatenated ITS2 and rbcL sequences.

Fig. 4 in Mysterious chokeberries: new data on the diversity and phylogeny of Aronia Medik. (Rosaceae)

Fig. 4. ML tree from the LEAFY2 sequences.

opencc-by-4.0Jun 2019View details →

Comparative whole genome phylogeny of animal, environmental and human strains confirms the genogroups organization and the diversity of Stenotrophomonas maltophilia

Reannotation of Smc genomes from Refseq (Prokka v1.13) and gene presence and absence spreadsheet from Roary.

Fig. 187 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 187. The holotype of Mulkrajanops moghliensis (VPL/K 563). (A) Dorsal view, (B) ventral view,

Fig. 172 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 172. The holotype upper left molar of ''Metatelmatherium (?)'' browni (AMNH 20008).

Fig. 170 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 170. Holotype of Tanyorhinus harundivorax (DMNH 552). (A) Dorsal view, (B) left view.

Fig. 151 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 151. Dorsal view of the holotype mandible of Notiotitanops mississippiensis (USNM 16646).

Fig. 157 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 157. Oblique view of left face of Duchesneodus uintensis (CMNH 11759).

Fig. 126 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 126. Juvenile skull of Embolotherium grangeri (AMNH 26040) with detached premaxilla.

Fig. 120 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 120. Anterior upper dentition of Embolotherium andrewsi (AMNH 26009).

Fig. 118 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 118. Skulls of Embolotherium andrewsi. (A) right face of AMNH 26009, (B) Right view of AMNH

Fig. 83 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 83. Left view of the holotype specimen of Rhinotitan andrewsi (AMNH 20271).

Fig. 80. A in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 80. A skull referred to Rhinotitan kaiseni (FMNH P14048). (A) Left view, (B) dorsal view.

Fig. 78 in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 78. Left view of a mandible referred to Protitanotherium emarginatum (AMNH 2501).

Fig. 74. A in Species Taxonomy, Phylogeny, and Biogeography of the Brontotheriidae (Mammalia: Perissodactyla)

Fig. 74. A skull referred to Protitanotherium emarginatum (TMM 41723-3). (A) Dorsal view,