SRR12668528 - Tribolium castaneum

Basic Information

Run: SRR12668528

Assay Type: WGS

Bioproject: PRJNA663749

Biosample: SAMN16178295

Bytes: 70722006

Center Name: NATIONAL CENTER FOR BIOLOGICAL SCIENCES

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: PAIRED

Library Selection: PCR

Platform: ILLUMINA

Geographic Information

Country: India

Continent: Asia

Location Name: India:Bangalore

Latitude/Longitude: 12.9716 N 77.5946 E

Sample Information

Host: Tribolium castaneum

Isolation: -

Biosample Model: Metagenome or environmental

Collection Date: 2018-02-05

Taxonomic Classification

Potential Symbionts

About Potential Symbionts

This table shows potential symbiont identified in the metagenome sample. Matches are scored based on:

Relative abundance in the sample
Species-level matches with known symbionts
Host insect order matches with reference records
Completeness and richness of functional records

Note: only the three highest scoring comparison records were retained for each symbiont species or genus in the sample

Based on our current records database, this section aims to identify potential functional symbionts in this metagenome sample, with scoring based on:

Relative abundance in sample
Species-level matches with known symbionts
Host insect order matches
Functional record completeness

Note: Showing top 3 highest scoring records for each species/genus

Symbiont Name	Record	Host Species	Function	Abundance	Score Score Composition: Symbiont Abundance Species match bonus Host match bonus Function richness Higher scores indicate stronger symbiotic relationship potential
Xanthomonas	RISB0498	Xylocopa appendiculata Order: Hymenoptera	Xanthomonas strain from Japanese carpenter bee is effective PU-degradable bacterium and is able to use polyacryl-based PU as a nutritional source, as well as other types of PS-PU and PE-PU	53.82%	57.6
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	53.82%	55.8
Escherichia coli Species-level Match Host Order Match Host Species Match	RISB0128	Tribolium castaneum Order: Coleoptera	may produce 4,8-dimethyldecanal (DMD) production that is strongly associated with attraction to females and host pheromone communication	2.91%	40.6
Enterococcus faecalis Species-level Match Host Order Match Host Species Match	RISB0374	Tribolium castaneum Order: Coleoptera	modulates host phosphine resistance by interfering with the redox system	1.52%	38.0
Acinetobacter Host Order Match Host Species Match	RISB0993	Tribolium castaneum Order: Coleoptera	may play a role in the larval gut for biodegradation of Polystyrene PS	0.08%	31.5
Pantoea sp. At-9b Species-level Match Host Order Match	RISB0736	Psylliodes chrysocephala Order: Coleoptera	Laboratory-reared and field-collected P. chrysocephala all contained three core genera Pantoea, Acinetobacter and Pseudomonas, and reintroduction of Pantoea sp. Pc8 in antibiotic-fed beetles restored isothiocyanate degradation ability in vivo (by 16S rRNA gene sequencing and LC-MS)	0.16%	20.2
Enterococcus faecalis Species-level Match Host Order Match	RISB0497	Cryptolestes ferrugineus Order: Coleoptera	bacteria can degrade malathion, pirimiphos-methyl, and deltamethrin and utilize these insecticides as the carbon source in vitro.	1.52%	19.1
Enterococcus faecalis Species-level Match Host Order Match	RISB2042	Harpalus pensylvanicus Order: Coleoptera	E. faecalis facilitate seed consumption by H. pensylvanicus, possibly by contributing digestive enzymes to their host	1.52%	18.9
Pseudomonas aeruginosa Species-level Match Host Order Match	RISB0364	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.65%	17.4
Pantoea sp. At-9b Species-level Match Host Order Match	RISB0814	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-14 oxidation pathway	0.16%	16.6
Paenibacillus sp. R14(2021) Species-level Match Host Order Match	RISB0813	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-9 oxidation pathway	0.18%	16.6
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1153	Tenebrio molitor Order: Coleoptera	degrading plastics	0.90%	16.3
Staphylococcus epidermidis Species-level Match Host Order Match	RISB1070	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.25%	15.5
Serratia Host Order Match	RISB0308	Rhopalotria slossonae Order: Coleoptera	suggesting the occurrence of an unprecedented desferrioxamine-like biosynthetic pathway,including desferrioxamine B, which may help tolerating diets rich in azoxyglycosides, BMAA, and other cycad toxins, including a possible role for bacterial siderophores	0.04%	15.0
Serratia Host Order Match	RISB1624	Dendroctonus valens Order: Coleoptera	volatiles from predominant bacteria regulate the consumption sequence of carbon sources d-pinitol and d-glucose in the fungal symbiont Leptographium procerum, and appear to alleviate the antagonistic effect from the fungus against RTB larvae	0.04%	14.9
Acinetobacter Host Order Match	RISB0730	Curculio chinensis Order: Coleoptera	Acinetobacter sp. in C. chinensis enriched after treating with saponin, and when incubating bacteria with saponin for 72 h, saponin content significantly decreased from 4.054 to 1.867 mg/mL (by 16S rRNA metagenome sequencing and HPLC)	0.08%	14.8
Sodalis Host Order Match	RISB2035	Sitophilus oryzae Order: Coleoptera	endosymbiont dynamics parallels numerous transcriptional changes in weevil developing adults and affects several biological processes, including metabolism and development	0.14%	13.6
Acinetobacter Host Order Match	RISB1356	Callosobruchus maculatus Order: Coleoptera	These bacterial phyla may allow the adults C. maculatus to survive on DDVP treated grains, thereby making it inappropriate to control the beetle populations in the field.	0.08%	13.5
Serratia Host Order Match	RISB0479	Monochamus alternatus Order: Coleoptera	show a strong inhibitory activity against entomopathogenic Beauveria bassiana by reducing the fungal conidial germination and growth rather than regulating host immunity	0.04%	13.4
Sodalis Host Order Match	RISB2607	Sitophilus oryzae Order: Coleoptera	induces the specific differentiation of the bacteriocytes, increases mitochondrial oxidative phosphorylation through the supply of pantothenic acid and riboflavin	0.14%	13.4
Sodalis Host Order Match	RISB1718	Sitophilus zeamais Order: Coleoptera	we investigated the role of a quorum sensing（QS ） system in S. praecaptivus and found that it negatively regulates a potent insect-killing phenotype	0.14%	13.1
Escherichia coli Species-level Match	RISB1339	Manduca sexta Order: Lepidoptera	modulate immunity-related gene expression in the infected F0 larvae, and also in their offspring, triggered immune responses in the infected host associated with shifts in both DNA methylation and histone acetylation	2.91%	12.2
Klebsiella pneumoniae Species-level Match	RISB2185	Scirpophaga incertulas Order: Lepidoptera	The ability of these arthropods to feed on wood, foliage and detritus is likely to involve catalysis by different types of cellulases/hemicellulases that are secreted by gut microbiota to digest the structural and recalcitrant lignocellulosic residues in their foods.	0.90%	10.9
Pantoea sp. At-9b Species-level Match	RISB0118	Nezara viridula Order: Hemiptera	plays an important role in interactions between insects and plants and could therefore be considered a valuable target for the development of sustainable pest control strategies;transmitted bacteria impacted plant chemical defenses and were able to degrade toxic plant metabolites, aiding the shield bug in its nutrition	0.16%	10.2
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	4.39%	9.4
Enterobacter ludwigii Species-level Match	RISB1543	Helicoverpa zea Order: Lepidoptera	two immunity-related genes glucose oxidase (GOX) and lysozyme (LYZ) were more highly expressed in both salivary glands and midguts compared with MgCl2 solution-treated caterpillars	0.35%	9.0
Escherichia coli Species-level Match	RISB2120	Galleria mellonella Order: Lepidoptera	mediate trans-generational immune priming	2.91%	8.7
Paenibacillus sp. R14(2021) Species-level Match	RISB0774	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.18%	8.4
Enterobacter ludwigii Species-level Match	RISB1223	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.35%	8.1
Sphingomonas sp. C3-2 Species-level Match	RISB0134	Spodoptera frugiperda Order: Lepidoptera	provide a protective effect to against chlorantraniliprole stress to S. frugiperda	0.44%	7.1
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	0.90%	6.9
Enterobacter ludwigii Species-level Match	RISB1397	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.35%	6.7
Paenibacillus sp. R14(2021) Species-level Match	RISB2098	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.18%	5.7
Brevundimonas sp. Bb-A Species-level Match	RISB1703	Phlebotomus papatasi Order: Diptera	None	0.49%	5.5
Candidatus Karelsulcia muelleri Species-level Match	RISB1591	Philaenus spumarius Order: Hemiptera	None	0.08%	5.1
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	0.58%	2.6
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	0.58%	2.2
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	0.58%	1.8
Massilia	RISB2151	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.23%	1.5
Dickeya	RISB1086	Rhodnius prolixus Order: Hemiptera	supply enzymatic biosynthesis of B-complex vitamins	0.10%	1.1
Ralstonia	RISB0243	Spodoptera frugiperda Order: Lepidoptera	None	0.14%	0.1