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Tytuł pozycji:

The complete chloroplast genome sequences for four Amaranthus species (Amaranthaceae).

Tytuł:
The complete chloroplast genome sequences for four Amaranthus species (Amaranthaceae).
Autorzy:
Chaney L; Department of Plant and Wildlife Sciences, Brigham Young University, 5144 Life Sciences Building, Provo, Utah 84602 USA.
Mangelson R; Department of Plant and Wildlife Sciences, Brigham Young University, 5144 Life Sciences Building, Provo, Utah 84602 USA.
Ramaraj T; The National Center for Genomic Resources, Santa Fe, New Mexico 87505 USA.
Jellen EN; Department of Plant and Wildlife Sciences, Brigham Young University, 5144 Life Sciences Building, Provo, Utah 84602 USA.
Maughan PJ; Department of Plant and Wildlife Sciences, Brigham Young University, 5144 Life Sciences Building, Provo, Utah 84602 USA.
Źródło:
Applications in plant sciences [Appl Plant Sci] 2016 Sep 19; Vol. 4 (9). Date of Electronic Publication: 2016 Sep 19 (Print Publication: 2016).
Typ publikacji:
Journal Article
Język:
English
Imprint Name(s):
Publication: 2018-: Hoboken, NJ : John Wiley & Sons, Inc.
Original Publication: St. Louis, MO : Botanical Society of America, 2013-
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Contributed Indexing:
Keywords: Amaranthaceae; Amaranthus hypochondriacus; chloroplast genome; grain amaranths; next-generation sequencing; pigweed
Entry Date(s):
Date Created: 20160928 Date Completed: 20160927 Latest Revision: 20240326
Update Code:
20240326
PubMed Central ID:
PMC5033369
DOI:
10.3732/apps.1600063
PMID:
27672525
Czasopismo naukowe
Premise of the Study: The amaranth genus contains many important grain and weedy species. We further our understanding of the genus through the development of a complete reference chloroplast genome.
Methods and Results: A high-quality Amaranthus hypochondriacus (Amaranthaceae) chloroplast genome assembly was developed using long-read technology. This reference genome was used to reconstruct the chloroplast genomes for two closely related grain species (A. cruentus and A. caudatus) and their putative progenitor (A. hybridus). The reference genome was 150,518 bp and possesses a circular structure of two inverted repeats (24,352 bp) separated by small (17,941 bp) and large (83,873 bp) single-copy regions; it encodes 111 genes, 72 for proteins. Relative to the reference chloroplast genome, an average of 210 single-nucleotide polymorphisms (SNPs) and 122 insertion/deletion polymorphisms (indels) were identified across the analyzed genomes.
Conclusions: This reference chloroplast genome, along with the reported simple sequence repeats, SNPs, and indels, is an invaluable genetic resource for studying the phylogeny and genetic diversity within the amaranth genus.

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