Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs
Title: Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs
ABSTRACT We report the full genome sequence ofHalomonassp. strain M1, isolated from a continental high pH serpentinizing spring in northern California, USA. The 3.7 Mb genome has a G + C content of 54.13%, encodes 3,354 protein-coding genes, and provides insights into the metabolic potential for sulfur oxidation. more »« less
Stark, Gwendolyn F; Truchon, Alexander R; Dittmann, Elke; Wilhelm, Steven W
(, Microbiology Resource Announcements)
Becket, Elinne
(Ed.)
ABSTRACT Here we report the complete, closed genome of the non-toxicMicrocystis aeruginosaPCC7806 ΔmcyBmutant strain. This genome is 5,103,923 bp long, with a GC content of 42.07%. Compared to the published wild-type genome (Microcystis aeruginosaPCC7806SL), there is evidence of accumulated mutations beyond the inserted chloramphenicol resistance marker.
Chase, Emily E; Truchon, Alexander R; Schepens, William W; Wilhelm, Steven W
(, Microbiology Resource Announcements)
Hudson, André O
(Ed.)
ABSTRACT Here, we report the draft genome ofAureococcus anophagefferensstrain CCMP1851, which is susceptible to the virusKratosvirus quantuckense. CCMP1851 complements an available genome for a virus-resistant strain (CCMP1850) isolated from the same bloom. Future studies can now use this genome to examine genetic hints of virus resistance and susceptibility.
Abstract The cabbage looper,Trichoplusia ni, is a globally distributed highly polyphagous herbivore and an important agricultural pest.T. nihas evolved resistance to various chemical insecticides, and is one of the only two insect species that have evolved resistance to the biopesticideBacillus thuringiensis(Bt) in agricultural systems and has been selected for resistance to baculovirus infections. We report a 333‐Mb high‐qualityT. nigenome assembly, which has N50 lengths of scaffolds and contigs of 4.6 Mb and 140 Kb, respectively, and contains 14,384 protein‐coding genes. High‐density genetic maps were constructed to anchor 305 Mb (91.7%) of the assembly to 31 chromosomes. Comparative genomic analysis ofT. niwithBombyx morishowed enrichment of tandemly duplicated genes inT. niin families involved in detoxification and digestion, consistent with the broad host range ofT. ni. High levels of genome synteny were found betweenT. niand other sequenced lepidopterans. However, genome synteny analysis ofT. niand theT. niderived cell line High Five (Hi5) indicated extensive genome rearrangements in the cell line. These results provided the first genomic evidence revealing the high instability of chromosomes in lepidopteran cell lines known from karyotypic observations. The high‐qualityT. nigenome sequence provides a valuable resource for research in a broad range of areas including fundamental insect biology, insect‐plant interactions and co‐evolution, mechanisms and evolution of insect resistance to chemical and biological pesticides, and technology development for insect pest management.
Powell, Adrian F.; Feder, Ari; Li, Jie; Schmidt, Maximilian H. ‐W.; Courtney, Lance; Alseekh, Saleh; Jobson, Emma M.; Vogel, Alexander; Xu, Yimin; Lyon, David; et al
(, The Plant Journal)
SUMMARY Wild relatives of tomato are a valuable source of natural variation in tomato breeding, as many can be hybridized to the cultivated species (Solanum lycopersicum). Several, includingSolanum lycopersicoides, have been crossed toS. lycopersicumfor the development of ordered introgression lines (ILs), facilitating breeding for desirable traits. Despite the utility of these wild relatives and their associated ILs, few finished genome sequences have been produced to aid genetic and genomic studies. Here we report a chromosome‐scale genome assembly forS. lycopersicoidesLA2951, which contains 37 938 predicted protein‐coding genes. With the aid of this genome assembly, we have precisely delimited the boundaries of theS. lycopersicoidesintrogressions in a set ofS. lycopersicumcv. VF36 × LA2951 ILs. We demonstrate the usefulness of the LA2951 genome by identifying several quantitative trait loci for phenolics and carotenoids, including underlying candidate genes, and by investigating the genome organization and immunity‐associated function of the clusteredPtogene family. In addition, syntenic analysis of R2R3MYB genes sheds light on the identity of theAuberginelocus underlying anthocyanin production. The genome sequence and IL map provide valuable resources for studying fruit nutrient/quality traits, pathogen resistance, and environmental stress tolerance. We present a new genome resource for the wild speciesS. lycopersicoides, which we use to shed light on theAuberginelocus responsible for anthocyanin production. We also provide IL boundary mappings, which facilitated identifying novel carotenoid quantitative trait loci of which one was likely driven by an uncharacterized lycopene β‐cyclase whose function we demonstrate.
Larson, Drew_A; Staton, Margaret_E; Kapoor, Beant; Islam‐Faridi, Nurul; Zhebentyayeva, Tetyana; Fan, Shenghua; Stork, Jozsef; Thomas, Austin; Ahmed, Alaa_S; Stanton, Elizabeth_C; et al
(, New Phytologist)
Summary White oak (Quercus alba) is an abundant forest tree species across eastern North America that is ecologically, culturally, and economically important.We report the first haplotype‐resolved chromosome‐scale genome assembly ofQ. albaand conduct comparative analyses of genome structure and gene content against other published Fagaceae genomes. We investigate the genetic diversity of this widespread species and the phylogenetic relationships among oaks using whole genome data.Despite strongly conserved chromosome synteny and genome size acrossQuercus, certain gene families have undergone rapid changes in size, including defense genes. Unbiased annotation of resistance (R) genes across oaks revealed that the overall number of R genes is similar across species – as are the chromosomal locations of R gene clusters – but, gene number within clusters is more labile. We found thatQ. albahas high genetic diversity, much of which predates its divergence from other oaks and likely impacts divergence time estimations. Our phylogenetic results highlight widespread phylogenetic discordance across the genus.The white oak genome represents a major new resource for studying genome diversity and evolution inQuercus. Additionally, we show that unbiased gene annotation is key to accurately assessing R gene evolution inQuercus.
Alibaglouei, Mehdi, Trutschel, Leah R, Rowe, Annette R, and Sackett, Joshua D.
"Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs". Microbiology Resource Announcements 12 (11). Country unknown/Code not available: American Society of Microbiology. https://doi.org/10.1128/MRA.00508-23.https://par.nsf.gov/biblio/10558566.
@article{osti_10558566,
place = {Country unknown/Code not available},
title = {Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs},
url = {https://par.nsf.gov/biblio/10558566},
DOI = {10.1128/MRA.00508-23},
abstractNote = {ABSTRACT We report the full genome sequence ofHalomonassp. strain M1, isolated from a continental high pH serpentinizing spring in northern California, USA. The 3.7 Mb genome has a G + C content of 54.13%, encodes 3,354 protein-coding genes, and provides insights into the metabolic potential for sulfur oxidation.},
journal = {Microbiology Resource Announcements},
volume = {12},
number = {11},
publisher = {American Society of Microbiology},
author = {Alibaglouei, Mehdi and Trutschel, Leah R and Rowe, Annette R and Sackett, Joshua D},
editor = {Stewart, Frank J}
}
Warning: Leaving National Science Foundation Website
You are now leaving the National Science Foundation website to go to a non-government website.
Website:
NSF takes no responsibility for and exercises no control over the views expressed or the accuracy of
the information contained on this site. Also be aware that NSF's privacy policy does not apply to this site.