ERC000047
ENA-CHECKLIST
EBI
INSDC center name
ERS11633412
SRA accession
SRR13685124_bin.18_CONCOCT_v1.1_MAG
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaspades_v3.13.0
assembly software
Default
binning parameters
CONCOCT v1.1
binning software
Algae
broad-scale environmental context
EMG broker account, EMBL-EBI
broker name
2016-12-21
collection date
93.61
%
completeness score
CheckM
completeness software
0.0
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR13685124 of study SRP305791.
description
Green algae
environmental medium
USA
geographic location (country and/or sea)
not provided
DD
geographic location (latitude)
not provided
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
lichen metagenome
isolation_source
Ectosymbionts
local environmental context
lichen metagenome
metagenomic source
Heterodermia sp.
organism
Reductions in genome size and complexity are a hallmark of obligate symbioses. The mitochondrial genome displays clear examples of these reductions, with the ancestral alpha-proteobacterial genome size and gene number having been reduced by orders of magnitude in most descendent modern mitochondrial genomes. Here, we examine patterns of mitochondrial evolution specifically looking at intron size, number, and position across 58 species from 21 genera of lichenized Ascomycete fungi, representing a broad range of fungal diversity and niches. Our results show that the cox1 gene always contained the highest number of introns out of all the mitochondrial protein-coding genes, that high intron sequence similarity can be maintained between different genera, and that lichens have undergone at least two instances of complete, genome-wide intron loss consistent with evidence for genome streamlining via loss of parasitic, noncoding DNA, in Phlyctis boliviensis and Graphis lineola. Notably, however, lichenized fungi have not only undergone intron loss but in some instances have expanded considerably in size due to intron proliferation (e.g., Alectoria fallacina and Parmotrema neotropicum), even between closely related sister species (e.g., Cladonia). These results shed light on the highly dynamic mitochondrial evolution that is occurring in lichens and suggest that these obligate symbiotic organisms are in some cases undergoing recent, broad-scale genome streamlining via loss of protein-coding genes as well as noncoding, parasitic DNA elements.
project name
SAMN17834497
sample derived from
Heterodermia sp.
scientific_name
NextSeq 550
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: SRR13685124_bin.18_CONCOCT_v1.1_MAG
title