2025-08-08
ENA first public
ERC000047
ENA-CHECKLIST
EMG
INSDC center name
public
INSDC status
ERS25424813
SRA accession
ERR14722425_binner23_Refined_14
Submitter Id
Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly quality
metaspades_v3.15.5
assembly software
default
binning parameters
MGnify-genomes-generation-pipeline_v1.0.0
binning software
soil
broad-scale environmental context
EBI-EMG
broker name
2019-12-12
collection date
95.03
%
completeness score
CheckM2_v1.0.1
completeness software
0.21
%
contamination score
This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic run ERR14722425 of study ERP166137.
description
tomato
environmental medium
Ecuador
geographic location (country and/or sea)
-4.38064100
DD
geographic location (latitude)
-80.23659400
DD
geographic location (longitude)
metagenome-assembled genome
investigation type
rhizosphere metagenome
isolation_source
rhizosphere
local environmental context
rhizosphere metagenome
metagenomic source
Ralstonia pickettii
organism
Plant roots are colonized by diverse communities of microorganisms that can affect plant growth and enhance plant tolerance to (a)biotic stresses. Here, we investigated the role of the indigenous soil microbiome in tolerance of tomato to the invasive sap-sucking insect Prodiplosis longifila (Diptera: Cecidomyiidae).Native and agricultural soils were sampled from the Andean region in Southern Ecuador and tested, in greenhouse bioassays, for leaf tissue damage caused by P. longifila on domesticated Solanum lycopersicum cv. Moneymaker and wild tomato S. pimpinellifolium. We observed no significant differences in insect damage between domesticated and wild tomatoes grown in live native or agricultural soils. However, when grown in sterilized native and agricultural soils, wild tomato was more severely affected by the insect than the domesticated tomato. Subsequent microbiome analyses revealed that soil sterilization impacted overall rhizobacterial diversity and abundance in the wild tomato rhizosphere. Particularly, the abundance of Actinoplanes was reduced upon sterilization which significantly correlated with loss of insect tolerance. Metagenome analyses and subsequent genome assembly of Micromonosporaceae (Actinoplanes family) suggested a putative association between motility, chemotaxis, membrane transport, chorismate and lanthipeptide biosynthesis and insect tolerance. Collectively, these results suggest that wild tomato S. pimpinellifolium, in contrast to domesticated S. lycopersicum, relies on specific members of the root-associated microbiome for protection against the invasive insect P. longifila aboveground.
project name
SAMEA117114794
sample derived from
Ralstonia pickettii
scientific_name
Illumina NovaSeq 6000
sequencing method
multi-marker approach
taxonomic identity marker
Metagenome-assembled genome: ERR14722425_binner23_Refined_14
title