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430 results for “phylogenetic relations”
Phylogenetic and epidemiologic data relating to age-specific HIV incidence and transmission in Rakai, Uganda, 2003-2018.
<p>This repository contains the data for the analyses presented in the paper Growing gender inequity in HIV infection in Africa: sources and policy implications by M. Monod, A. Brizzi, R. Galiwango, R. Ssekubugu, Y. Chen, X. Xi et al. available in the pre-print <a href="https://doi.org/10.1101/2023.03.16.23287351">https://doi.org/10.1101/2023.03.16.23287351</a> </p> <p>We thank all contributors, program staff and participants to the Rakai Community Cohort Study; all members of the PANGEA-HIV consortium, the <a href="https://www.rhsp.org/index.php">Rakai Health Sciences Program</a>, and CDC Uganda for comments on an earlier version of the manuscript.</p> <p>We also extend our gratitude to the <a href="https://doi.org/10.14469/hpc/2232">Imperial College Research Computing Service</a> and the <a href="https://www.bdi.ox.ac.uk/about/biomedical-research-computing">Biomedical Research Computing Cluster</a> at the University of Oxford for providing the computational resources to perform this study. Additionally, we thank the Office of Cyberinfrastructure and Computational Biology at the <a href="https://www.niaid.nih.gov/">National Institute for Allergy and Infectious Diseases</a> for data management support; and Zulip for sponsoring team communications through the Zulip Cloud Standard chat app. </p> <p>All analysis code is available from <a href="https://github.com/MLGlobalHealth/phyloSI-RakaiAgeGender">https://github.com/MLGlobalHealth/phyloSI-RakaiAgeGender</a>.</p>
How is tree growth rate linked to root functional traits in phylogenetically related poplar hybrids?
<p>Fine roots play a crucial role in soil nutrient and water acquisition, significantly contributing to tree growth. Fine roots with a high specific root length (SRL) and small diameter are often considered to help trees grow fast. However, inconsistencies in the literature do not provide a clear basis on the effect of root functional traits, such as SRL or root mass density (RMD), on tree growth rate in phylogenetically related trees. Our aim was to examine relationships between tree growth rate and root functional traits, using clones displaying different growth rates in a hybrid poplar plantation located in New Liskeard, ON, Canada. Fine roots (diameter < 2 mm) samples were collected using soil cores at depths of 0–20, 20–40 and 40–60 cm, and analyzed for morphological, chemical and architectural traits. High SRL and thin fine roots were associated with the least productive clones, which is not consistent with the root economics spectrum (RES) theory. However, the most productive clone had larger fine root diameter and higher root lignin concentrations, probably reducing root construction and maintenance costs and C losses. Therefore, at the 0–20 and 20–40 cm depths, tree growth rates showed positive correlations with root diameter and root lignin concentrations, but negative correlations with SRL and root soluble compounds concentration. Increasing RMD at the 0–20 cm depth promoted tree growth rates, showing the importance of soil exploration in the topsoil for tree growth. We conclude that fine root variation does not always follow the RES hypothesis and argue that the rapid growth rate of trees may also be driven by fine root growth in diameter and mass in phylogenetically related trees.</p>
Fig. 119 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 119. Dorsomedial (cerebellar) views of left petrosal of Tapirus terrestris (AMNH-VP 14103/1587). Scale 5 1 cm.
Fig. 118 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 118. Ventrolateral (tympanic) views of left petrosal of Tapirus terrestris (AMNH-VP 14103/1587)
Fig. 113 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 113. Ventrolateral (tympanic) views of the left petrosals of Equus caballus (SB MP 55) (Perissodactyla, Hippomorpha) and Tapirus terrestris (AMNH-VP 14103/1587) (Perissodactyla, Ceratomorpha) indicating petrosal contacts (outline) with different parts of the bony tympanic bulla and meatal tube. Striped areas indicate where the bony bulla has fused to the petrosal.
Fig. 115 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 115. Dorsolateral views of left petrosals of Equus caballus (SB MP 55) (Perissodactyla, Hippomorpha) and Tapirus terrestris (AMNH-VP 14103/1587) (Perissodactyla, Ceratomorpha). Dorsomedial and ventrolateral surfaces are gray.
Fig. 112 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 112. Ventrolateral (tympanic) views of left petrosal of Equus caballus (SB MP 55) (Perissodactyla, Hippomorpha). Striped areas are fused bulla. Scale 5 1 cm.
Fig. 108 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 108. Ventromedial views of left petrosals of †Dissacus praenuntius (UM 75501) (†Mesonychia, †Mesonychidae) and †Mesonyx obtusidens (AMNH-VP 12643) (†Mesonychia, †Mesonychidae). Dorsomedial and ventrolateral surfaces are gray.
Fig. 107 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 107. Dorsolateral views of left petrosals of †Dissacus praenuntius (UM 75501) (†Mesonychia, †Mesonychidae) and †Mesonyx obtusidens (AMNH-VP 12643 (†Mesonychia, †Mesonychidae). Dorsomedial and ventrolateral surfaces are gray.
Fig. 101 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 101. Ventromedial views of left petrosals of †Basilosaurus isis (UM 97507) (Cetaceamorpha, Basilosauridae) and †Dorudon atrox (UM 94812) (Cetaceamorpha, Basilosauridae).
Fig. 114 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 114. Dorsomedial (cerebellar) views of left petrosal of Equus caballus (SB MP 55) (Perissodactyla, Hippomorpha). Scale 5 1 cm.
Fig. 102 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 102. Anterior views of left petrosals of †Basilosaurus isis (UM 95707) (Cetaceamorpha, Basilosauridae) and †Dorudon atrox (UM 94812) (Cetaceamorpha, Basilosauridae).
Fig. 100 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 100. Dorsolateral views of left petrosals of †Basilosaurus isis (UM 97507) (Cetaceamorpha, Basilosauridae) and †Dorudon atrox (UM 94812) (Cetaceamorpha, Basilosauridae).
Fig. 97 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 97. Ventrolateral (tympanic) views of left petrosal of †Basilosaurus isis (UM 97507) (Cetaceamorpha, Basilosauridae). Striped areas indicate a break where the mastoid region is attached. Scale 5 1 cm.
Fig. 98 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 98. Tympanic contacts with ventrolateral petrosal of †Mesonyx obtusidens (AMNH-VP 12643) (†Mesonychia, †Mesonychidae). Tympanic contacts not shown for †Basilosaurus isis, †Dorudon atrox, and †Dissacus praenuntius (no new information available).
Fig. 96 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 96. Ventrolateral (tympanic) views of left petrosal of †Pakicetus inachus (HGSP 96231, some features corroborated on HGSP 96386) (Cetaceamorpha). The specimen has been illustrated in situ not as an isolated petrosal, and thus some aspects of the petrosal (e.g., tegmen tympani) were not visible for study. Scale 5 1 cm.
Fig. 84 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 84. Ventrolateral (tympanic) view of left petrosal of Kogia breviceps (AMNH 35912) (Cetacea, Odontoceti). Striped areas indicate broken bullar attachment. Scale 5 1 cm.
Fig. 75 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 75. Ventrolateral (tympanic) views of left petrosal of †Archaeotherium sp. (AMNH-VP 96433) (†Entelodontoidea, †Entelodontidae). Scale 5 1 cm. Dotted lines indicate estimated extent of promontorium.
Fig. 73 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 73. Tympanic contacts (black lines) with left petrosals for †Merycoidodon sp. (AMNH-VP LUSK 0781572) (†Oreodontoidea, †Oreodontidae), †Archaeotherium sp. (AMNH-VP 96433) (†Entelodontoidea, †Entelodontidae), Balaenoptera acutorostrata (USNM-M 504952) (Cetacea, Mysticeti), and Inia geoffrensis (AMNH 209103) (Cetacea, Odontoceti). Contacts in †Archaeotherium approximated (dotted lines).
Fig. 79 in An Anatomical And Phylogenetic Study Of The Osteology Of The Petrosal Of Extant And Extinct Artiodactylans (Mammalia) And Relatives
Fig. 79. Dorsolateral views of left petrosals of Balaenoptera acutorostrata (USNM-M 504952) (Cetacea, Mysticeti), Inia geoffrensis (AMNH 209104), and Kogia breviceps (AMNH 35912) (Cetacea, Odonotoceti). Dorsomedial and ventrolateral surfaces are gray.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.