SRR6033690 - Nomia

Basic Information

Run: SRR6033690

Assay Type: WGS

Bioproject: PRJNA407112

Biosample: SAMN07634942

Bytes: 68246310

Center Name: COLUMBIA

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: SINGLE

Library Selection: RANDOM PCR

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: Washington

Latitude/Longitude: 46.0177 N 118.6975 W

Sample Information

Host: Nomia

Isolation: Whole body homogenate

Biosample Model: Metagenome or environmental

Collection Date: 2015-08-01

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
Pseudomonas sp. CIP-10 Species-level Match Host Order Match	RISB1564	Liometopum apiculatum Order: Hymenoptera	None	6.13%	21.1
Gilliamella apicola Species-level Match Host Order Match	RISB0102	Apis mellifera Order: Hymenoptera	Gilliamella apicola carries the gene for the desaturase FADS2, which is able to metabolize polyunsaturated fatty acids from pollen and synthesize endocannabinoid, a lipogenic neuroactive substance, thereby modulating reward learning and memory in honeybees.	0.09%	20.1
Bifidobacterium asteroides Species-level Match Host Order Match	RISB0174	Apis mellifera Order: Hymenoptera	Bifidobacterium provides complementary demethylation service to promote Gilliamella growth on methylated homogalacturonan, an enriched polysaccharide of pectin. In exchange, Gilliamella shares digestive products with Bifidobacterium, through which a positive interaction is established	0.06%	20.1
Streptomyces sp. T12 Species-level Match Host Order Match	RISB0943	Polybia plebeja Order: Hymenoptera	this bacterium produces antimicrobial compounds that are active against Hirsutella citriformis, a natural fungal enemy of its host, and the human pathogens Staphylococcus aureus and Candida albicans	1.06%	20.0
Streptomyces sp. RLB3-5 Species-level Match Host Order Match	RISB0943	Polybia plebeja Order: Hymenoptera	this bacterium produces antimicrobial compounds that are active against Hirsutella citriformis, a natural fungal enemy of its host, and the human pathogens Staphylococcus aureus and Candida albicans	0.88%	19.8
Streptomyces sp. T12 Species-level Match Host Order Match	RISB2334	Sirex noctilio Order: Hymenoptera	degrading woody substrates and that such degradation may assist in nutrient acquisition by S. noctilio, thus contributing to its ability to be established in forested habitats worldwide	1.06%	19.8
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB2004	Trichogramma chilonis Order: Hymenoptera	could significantly increase both female count	2.09%	18.0
Snodgrassella alvi Species-level Match Host Order Match	RISB1423	Bombus spp. Order: Hymenoptera	The bumble bee microbiome slightly increases survivorship when the host is exposed to selenate	0.12%	17.0
Pseudomonas sp. CIP-10 Species-level Match	RISB1622	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	6.13%	16.0
Snodgrassella alvi Species-level Match Host Order Match	RISB1947	Apis cerana Order: Hymenoptera	None	0.12%	15.1
Gilliamella apicola Species-level Match Host Order Match	RISB1945	Apis cerana Order: Hymenoptera	None	0.09%	15.1
Lactobacillus apis Species-level Match Host Order Match	RISB1556	Apis florea Order: Hymenoptera	None	0.03%	15.0
Pseudomonas sp. FP2034 Species-level Match Host Order Match	RISB1564	Liometopum apiculatum Order: Hymenoptera	None	0.01%	15.0
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.	4.25%	14.3
Nocardia Host Order Match	RISB0947	Acromyrmex Order: Hymenoptera	Pseudonocardia in the Acromyrmex leaf-cutter ants as a protective partner against the entomopathogenic fungus Metarhizium	0.02%	12.4
Rickettsia Host Order Match	RISB0257	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.02%	12.3
Nocardia Host Order Match	RISB1218	Mycocepurus smithii Order: Hymenoptera	produce secondary metabolites with antibiotic activity that protects the fungus garden against pathogens	0.02%	12.1
Burkholderia Host Order Match	RISB2149	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.49%	11.8
Rickettsia Host Order Match	RISB1970	Leptocybe invasa Order: Hymenoptera	Rickettsia as the causal agent of thelytokous parthenogenesis in L. invasa	0.02%	11.5
Rickettsia Host Order Match	RISB2475	Pnigalio soemius Order: Hymenoptera	cause parthenogenetic reproduction in the parasitoid wasp	0.02%	11.2
Bacillus cereus Species-level Match	RISB2161	Termitidae Order: Blattodea	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.	1.11%	11.1
Stenotrophomonas maltophilia Species-level Match	RISB1122	Bombyx mori Order: Lepidoptera	facilitate host resistance against organophosphate insecticides, provides essential amino acids that increase host fitness and allow the larvae to better tolerate the toxic effects of the insecticide.	2.09%	11.1
Burkholderia Host Order Match	RISB2101	Formica exsecta Order: Hymenoptera	produce antibiotics	0.49%	10.9
Burkholderia Host Order Match	RISB2580	Tetraponera binghami Order: Hymenoptera	Nitrogen fixation	0.49%	10.8
Enterobacter sp. T2 Species-level Match	RISB0893	Bactrocera dorsalis Order: Diptera	be beneficial, with some quality control indices, such as adult size, pupal weight, survival rate under stress and nutritionally rich conditions, and mating competitiveness, being significantly increased, while slight nonsignificant increases in emergence rate and flight ability were observed	0.76%	10.8
Bacillus subtilis Species-level Match	RISB0481	Bombyx mori Order: Lepidoptera	B. subtilis can generate a variety of primary and secondary metabolites, such as B vitamins and antimicrobial compounds, to provide micronutrients and enhance the pathogen resistance of their insect host; The antimicrobial compounds secreted by B. subtilis were the primary driving force for the reconstruction of intestinal microbiota	0.49%	10.5
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	4.25%	10.3
Listeria monocytogenes Species-level Match	RISB2308	Drosophila melanogaster Order: Diptera	L. monocytogenes infection disrupts host energy metabolism by depleting energy stores (triglycerides and glycogen) and reducing metabolic pathway activity (beta-oxidation and glycolysis). The infection affects antioxidant defense by reducing uric acid levels and alters amino acid metabolism. These metabolic changes are accompanied by melanization, potentially linked to decreased tyrosine levels.	0.14%	10.1
Bacillus thuringiensis Species-level Match	RISB2177	Armadillidae Order: Isopoda	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.	0.11%	10.1
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	0.78%	10.1
Paenibacillus polymyxa Species-level Match	RISB2195	Termitidae Order: Blattodea	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.	0.03%	10.0
Buchnera aphidicola Species-level Match	RISB0236	Acyrthosiphon pisum Order: Hemiptera	Buchnera the nutritional endosymbiont of A. pisum is located inside of bacteriocytes and requires aspartate from the aphid host, because it cannot make it de novo. Further Buchnera needs aspartate for the biosynthesis of the essential amino acids lysine and threonine, which the aphid and Buchnera require for survival	0.01%	10.0
Enterobacter sp. T2 Species-level Match	RISB1338	Ceratitis capitata Order: Diptera	Enterobacter sp. AA26 dry biomass can fully replace the brewer’s yeast as a protein source in medfly larval diet without any effect on the productivity and the biological quality of reared medfly of VIENNA 8 GSS	0.76%	10.0
Klebsiella pneumoniae Species-level Match	RISB1994	Diatraea saccharalis Order: Lepidoptera	possess cellulose degrading activity	4.25%	10.0
Stenotrophomonas maltophilia Species-level Match	RISB1227	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	2.09%	9.8
Buchnera aphidicola Species-level Match	RISB2485	Macrosiphum euphorbiae Order: Hemiptera	symbiont expression patterns differ between aphid clones with differing levels of virulence, and are influenced by the aphids' host plant. Potentially, symbionts may contribute to differential adaptation of aphids to host plant resistance	0.01%	9.8
Acinetobacter sp. GSS19 Species-level 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)	0.06%	9.7
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	7.52%	9.5
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	7.52%	9.2
Enterobacter sp. T2 Species-level Match	RISB2221	Leptinotarsa decemlineata Order: Coleoptera	Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)	0.76%	9.1
Mammaliicoccus sciuri Species-level Match	RISB0075	Bombyx mori Order: Lepidoptera	could produce a secreted chitinolytic lysozyme (termed Msp1) to damage fungal cell walls，completely inhibit the spore germination of fungal entomopathogens Metarhizium robertsii and Beauveria bassiana	0.02%	9.0
Acinetobacter sp. GSS19 Species-level Match	RISB1978	Blattella germanica Order: Blattodea	gut microbiota contributes to production of VCAs that act as fecal aggregation agents and that cockroaches discriminate among the complex odors that emanate from a diverse microbial community	0.06%	8.9
Buchnera aphidicola Species-level Match	RISB0685	Acyrthosiphon pisum Order: Hemiptera	It supplies the host with vitamins and essential amino acids, such as arginine and methionine that aphids cannot synthesize or derive insufficiently from their diet, the phloem sap of plants	0.01%	8.8
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	7.52%	8.7
Lactobacillus sp. IBH004 Species-level Match	RISB0292	Lymantria dispar asiatica Order: Lepidoptera	Beauveria bassiana infection-based assays showed that the mortality of non-axenic L. dispar asiatica larvae was significantly higher than that of axenic larvae at 72 h.	0.15%	8.5
Bifidobacterium asteroides Species-level Match	RISB0616	Spodoptera frugiperda Order: Lepidoptera	Strain wkB204 grew in the presence of amygdalin as the sole carbon source, suggesting that this strain degrades amygdalin and is not susceptible to the potential byproducts	0.06%	8.5
Escherichia coli Species-level 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	0.78%	8.5
Arthrobacter sp. ATA002 Species-level Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.04%	8.3
Arthrobacter sp. Helios Species-level Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.02%	8.3
Acinetobacter sp. GSS19 Species-level Match	RISB1500	Lymantria dispar Order: Lepidoptera	Bacteria isolated from a host plant had a glycoside-degrading activity, which enhanced growth of the moth when larvae were fed on a toxin-containing diet	0.06%	8.1
Citrobacter freundii Species-level Match	RISB0517	Leptinotarsa decemlineata Order: Coleoptera	affect the cellular and humoral immunity of the insect, increasing its susceptibility to Bacillus thuringiensis var. tenebrionis (morrisoni) (Bt)	0.02%	7.9
Citrobacter freundii Species-level Match	RISB0127	Tribolium castaneum Order: Coleoptera	may produce 4,8-dimethyldecanal (DMD) production that is strongly associated with attraction to females and host pheromone communication	0.02%	7.7
Citrobacter freundii Species-level Match	RISB1221	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.02%	7.7
Enterococcus faecalis Species-level Match	RISB0497	Cryptolestes ferrugineus Order: Coleoptera	bacteria can degrade malathion, pirimiphos-methyl, and deltamethrin and utilize these insecticides as the carbon source in vitro.	0.10%	7.7
Enterococcus faecalis Species-level Match	RISB1411	Bactrocera dorsalis Order: Diptera	female Bactrocera dorsalis fed Enterococcus faecalis and Klebsiella oxytoca enriched diets lived longer but had lower fecundity	0.10%	7.6
Enterococcus faecalis Species-level Match	RISB2042	Harpalus pensylvanicus Order: Coleoptera	E. faecalis facilitate seed consumption by H. pensylvanicus, possibly by contributing digestive enzymes to their host	0.10%	7.4
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	1.78%	6.8
Corynebacterium sp. Z-1 Species-level Match	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.08%	6.7
Sphingomonas sp. AAP5 Species-level Match	RISB0134	Spodoptera frugiperda Order: Lepidoptera	provide a protective effect to against chlorantraniliprole stress to S. frugiperda	0.09%	6.7
Sphingomonas sp. NIBR02145 Species-level Match	RISB0134	Spodoptera frugiperda Order: Lepidoptera	provide a protective effect to against chlorantraniliprole stress to S. frugiperda	0.06%	6.7
Staphylococcus hominis Species-level Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	1.34%	6.6
Escherichia coli Species-level Match	RISB2120	Galleria mellonella Order: Lepidoptera	mediate trans-generational immune priming	0.78%	6.6
Staphylococcus hominis Species-level Match	RISB1071	Oryctes rhinoceros Order: Coleoptera	gut microbe	1.34%	6.6
Staphylococcus epidermidis Species-level Match	RISB1070	Oryctes rhinoceros Order: Coleoptera	gut microbe	1.29%	6.5
Micrococcus	RISB2276	Ostrinia nubilalis Order: Lepidoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	4.31%	6.2
Lactiplantibacillus plantarum Species-level Match	RISB0674	Drosophila melanogaster Order: Diptera	could effectively inhibit fungal spore germinations	0.03%	6.1
Lactiplantibacillus plantarum Species-level Match	RISB0608	Drosophila melanogaster Order: Diptera	None	0.03%	5.0
Micromonospora harpali Species-level Match	RISB2034	Harpalus sinicus Order: Coleoptera	None	0.02%	5.0
Rhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	2.27%	3.8
Rhodococcus	RISB0775	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.07%	3.3
Halomonas	RISB1808	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.71%	2.0
Rhodococcus	RISB0430	Rhodnius prolixus Order: Hemiptera	Rhodnius prolixus harbouring R. rhodnii developed faster, had higher survival, and laid more eggs	0.07%	2.0
Bradyrhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	0.25%	1.8
Vibrio	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.41%	1.7
Actinomyces	RISB1234	Hermetia illucens Order: Diptera	provides the tools for degrading of a broad range of substrates	0.39%	1.7
Rhodococcus	RISB1087	Rhodnius prolixus Order: Hemiptera	supply enzymatic biosynthesis of B-complex vitamins	0.07%	1.1
Brevibacterium	RISB0464	Acrida cinerea Order: Orthoptera	correlated with the hemicellulose digestibility	0.05%	1.0
Aeromonas	RISB2456	Bombyx mori Order: Lepidoptera	able to utilize the CMcellulose and xylan	0.04%	0.9
Mycobacterium	RISB1156	Nicrophorus concolor Order: Coleoptera	produces Antimicrobial compounds	0.20%	0.8
Brevibacterium	RISB2359	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.05%	0.8
Gordonia	RISB1912	Hyles euphorbiae Order: Lepidoptera	able to degrade alkaloids and/or latex	0.05%	0.8
Nocardioides	RISB1914	Hyles euphorbiae Order: Lepidoptera	able to degrade alkaloids and/or latex	0.03%	0.8
Neisseria	RISB0512	Plutella xylostella Order: Lepidoptera	None	0.78%	0.8
Halomonas	RISB1374	Bemisia tabaci Order: Hemiptera	None	0.71%	0.7
Aeromonas	RISB2086	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.04%	0.6
Aeromonas	RISB1145	Tenebrio molitor Order: Coleoptera	degrading plastics	0.04%	0.4
Chroococcidiopsis	RISB0487	Ceratitis capitata Order: Diptera	None	0.11%	0.1
Paraburkholderia	RISB0125	Physopelta gutta Order: Hemiptera	None	0.11%	0.1
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	0.08%	0.1
Cupriavidus	RISB0694	Alydus tomentosus Order: Hemiptera	None	0.06%	0.1
Brevibacterium	RISB0897	Myzus persicae Order: Hemiptera	None	0.05%	0.1