Zobrazeno 1 - 10
of 53
pro vyhledávání: '"HybPiper"'
Publikováno v:
Horticulture Advances, Vol 2, Iss 1, Pp 1-16 (2024)
Abstract Sequencing strategies have continually advanced, with high-throughput sequencing (HTS) technologies emerging as pivotal tools in plant phylogenomics. As a standard form of target capture sequencing, hybridization target enrichment sequencing
Externí odkaz:
https://doaj.org/article/17f039098cd046c6a0d11080f6c8792a
Resolving the phylogeny of Thladiantha (Cucurbitaceae) with three different target capture pipelines
Publikováno v:
BMC Ecology and Evolution, Vol 23, Iss 1, Pp 1-13 (2023)
Abstract Background Despite recent advances, reliable tools to simultaneously handle different types of sequencing data (e.g., target capture, genome skimming) for phylogenomics are still scarce. Here, we evaluate the performance of the recently deve
Externí odkaz:
https://doaj.org/article/3a01de4ee0954c7fb6736f04d2c3a227
Publikováno v:
Applications in Plant Sciences, Vol 11, Iss 4, Pp n/a-n/a (2023)
Abstract Premise The HybPiper pipeline has become one of the most widely used tools for the assembly of target capture data for phylogenomic analysis. After the production of locus sequences and before phylogenetic analysis, the identification of par
Externí odkaz:
https://doaj.org/article/2133dfefccf54dc896d27d2aec2e87e9
Publikováno v:
Frontiers in Genetics, Vol 13 (2023)
The plant family Bignoniaceae is a conspicuous and charismatic element of the tropical flora. The family has a complex taxonomic history, with substantial changes in the classification of the group during the past two centuries. Recent re-classificat
Externí odkaz:
https://doaj.org/article/102a986405f543d79d1b61d8907e4637
Autor:
Felix Grewe, Claudio Ametrano, Todd J. Widhelm, Steven Leavitt, Isabel Distefano, Wetchasart Polyiam, David Pizarro, Mats Wedin, Ana Crespo, Pradeep K. Divakar, H. Thorsten Lumbsch
Publikováno v:
IMA Fungus, Vol 11, Iss 1, Pp 1-11 (2020)
Abstract Parmeliaceae is the largest family of lichen-forming fungi with a worldwide distribution. We used a target enrichment data set and a qualitative selection method for 250 out of 350 genes to infer the phylogeny of the major clades in this fam
Externí odkaz:
https://doaj.org/article/00bd739809424f1fb7f0ead29328a2b9
Akademický článek
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Autor:
Todd G. B. McLay, Joanne L. Birch, Bee F. Gunn, Weixuan Ning, Jennifer A. Tate, Lars Nauheimer, Elizabeth M. Joyce, Lalita Simpson, Alexander N. Schmidt‐Lebuhn, William J. Baker, Félix Forest, Chris J. Jackson
Publikováno v:
Applications in Plant Sciences, Vol 9, Iss 7, Pp n/a-n/a (2021)
PREMISE Universal target enrichment kits maximize utility across wide evolutionary breadth while minimizing the number of baits required to create a cost‐efficient kit. The Angiosperms353 kit has been successfully used to capture loci throughout th
Externí odkaz:
https://doaj.org/article/286e99861eee4328a1ba5f54f9da98aa
Autor:
Lars Nauheimer, Nicholas Weigner, Elizabeth Joyce, Darren Crayn, Charles Clarke, Katharina Nargar
Publikováno v:
Applications in Plant Sciences, Vol 9, Iss 7, Pp n/a-n/a (2021)
PREMISE Hybrids contain divergent alleles that can confound phylogenetic analyses but can provide insights into reticulated evolution when identified and phased. We developed a workflow to detect hybrids in target capture data sets and phase reads in
Externí odkaz:
https://doaj.org/article/33c80112c2c24f1aaf9fbe20a2f3f4cd
Akademický článek
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Autor:
Johanna R. Jantzen, Prabha Amarasinghe, Ryan A. Folk, Marcelo Reginato, Fabian A. Michelangeli, Douglas E. Soltis, Nico Cellinese, Pamela S. Soltis
Publikováno v:
Applications in Plant Sciences, Vol 8, Iss 5, Pp n/a-n/a (2020)
Premise Putatively single‐copy nuclear (SCN) loci, which are identified using genomic resources of closely related species, are ideal for phylogenomic inference. However, suitable genomic resources are not available for many clades, including Melas
Externí odkaz:
https://doaj.org/article/1eaed9962a3d4e88a65ac5e8eafa3e58