Parks, Donovan H.


Publications
10

SeqCode: a nomenclatural code for prokaryotes described from sequence data

Citation
Hedlund et al. (2022). Nature Microbiology
Names
Kryptonium mobile Kryptoniaceae Kryptoniia Kryptoniales
Abstract
AbstractMost prokaryotes are not available as pure cultures and therefore ineligible for naming under the rules and recommendations of the International Code of Nomenclature of Prokaryotes (ICNP). Here we summarize the development of the SeqCode, a code of nomenclature under which genome sequences serve as nomenclatural types. This code enables valid publication of names of prokaryotes based upon isolate genome, metagenome-assembled genome or single-amplified genome sequences. Otherwise, it is s

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

Citation
Parks et al. (2017). Nature Microbiology 2 (11)
Names
Binatus soli Ts Binatus
Abstract
AbstractChallenges in cultivating microorganisms have limited the phylogenetic diversity of currently available microbial genomes. This is being addressed by advances in sequencing throughput and computational techniques that allow for the cultivation-independent recovery of genomes from metagenomes. Here, we report the reconstruction of 7,903 bacterial and archaeal genomes from >1,500 public metagenomes. All genomes are estimated to be ≥50% complete and nearly half are ≥90% complete with ≤5%

On the origins of oxygenic photosynthesis and aerobic respiration in Cyanobacteria

Citation
Soo et al. (2017). Science 355 (6332)
Names
“Sericytochromatia”
Abstract
Oxygen-producing photosynthesis and oxygen-consuming respiration evolved after the divergence of the main lineages of blue-green algae.