SRR27609073 - Bombus impatiens

Basic Information

Run: SRR27609073

Assay Type: WGS

Bioproject: PRJNA1066198

Biosample: SAMN39482723

Bytes: 4205223565

Center Name: UNIVERSITY OF OTTAWA

Sequencing Information

Instrument: Illumina NovaSeq 6000

Library Layout: SINGLE

Library Selection: RANDOM

Platform: ILLUMINA

Geographic Information

Country: Canada

Continent: North America

Location Name: Canada: Ottawa

Latitude/Longitude: 45.42141677 N 75.68148579 W

Sample Information

Host: Bombus impatiens

Isolation: gut

Biosample Model: Metagenome or environmental

Collection Date: 2021-07-16

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 Host Order Match	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	30.07%	43.8
Xanthomonas Host Order Match	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	30.07%	42.0
Mycobacterium	RISB1156	Nicrophorus concolor Order: Coleoptera	produces Antimicrobial compounds	25.86%	26.5
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	2.30%	21.3
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	2.30%	21.0
Streptomyces sp. T12 Species-level Match Host Order Match	RISB1134	mud dauber wasp Order: Hymenoptera	secondary metabolites derived from a Streptomyces sp. displayed significant inhibitory activity against hexokinase II	2.30%	19.6
Wolbachia Host Order Match	RISB0190	Encarsia formosa Order: Hymenoptera	Wolbachia's parthenogenesis-induction feminization factor (piff) gene modulates sex determination in Encarsia formosa by regulating doublesex (dsx) expression. When Wolbachia is removed, female-specific dsx decreases while male-specific dsx increases, resulting in haploid male offspring	2.90%	17.9
Wolbachia Host Order Match	RISB1584	Nasonia vitripennis Order: Hymenoptera	there were few significant changes in immune or reproductive proteins between samples with and without Wolbachia infection. Differentially expressed proteins were involved in the binding process, catalytic activity, and the metabolic process	2.90%	17.7
Pseudomonas sp. CIP-10 Species-level Match Host Order Match	RISB1564	Liometopum apiculatum Order: Hymenoptera	None	2.35%	17.4
Bacillus sp. FJAT-22090 Species-level Match Host Order Match	RISB0218	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	0.02%	17.0
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB2004	Trichogramma chilonis Order: Hymenoptera	could significantly increase both female count	0.63%	16.6
Wolbachia Host Order Match	RISB2601	Asobara tabida Order: Hymenoptera	Wolbachia is necessary for oogenesis in these A. tabida strains，aposymbiotic female wasps were completely incapable of producing mature oocytes and therefore could not reproduce	2.90%	16.4
Providencia sp. PROV252 Species-level Match Host Order Match	RISB0984	Nasonia vitripennis Order: Hymenoptera	may highly associated with diapause	0.03%	15.7
Pseudomonas sp. MM227 Species-level Match Host Order Match	RISB1564	Liometopum apiculatum Order: Hymenoptera	None	0.28%	15.3
Arsenophonus nasoniae Species-level Match Host Order Match	RISB0428	Nasonia vitripennis Order: Hymenoptera	male killing	0.01%	15.3
Lactobacillus apis Species-level Match Host Order Match	RISB1556	Apis florea Order: Hymenoptera	None	0.09%	15.1
Pseudomonas sp. REST10 Species-level Match Host Order Match	RISB1564	Liometopum apiculatum Order: Hymenoptera	None	0.03%	15.0
Bacillus sp. FJAT-22090 Species-level Match Host Order Match	RISB1562	Liometopum apiculatum Order: Hymenoptera	None	0.02%	15.0
Arsenophonus nasoniae Species-level Match Host Order Match	RISB0366	Pachycrepoideus vindemmiae Order: Hymenoptera	None	0.01%	15.0
Spiroplasma Host Order Match	RISB1353	Cephus cinctus Order: Hymenoptera	The bacterium also encoded biosynthetic pathways for essential vitamins B2, B3, and B9. We identified putative Spiroplasma virulence genes: cardiolipin and chitinase.	0.23%	13.6
Amycolatopsis Host Order Match	RISB0483	Trachymyrmex smithi Order: Hymenoptera	inhibited the growth of Pseudonocardia symbionts under laboratory conditions. The novel analog nocamycin V from the strain was identified as the antibacterial compound	0.08%	13.4
Amycolatopsis Host Order Match	RISB0199	Trachymyrmex Order: Hymenoptera	produce antibiotic EC0-0501 that has strong activity against ant-associated Actinobacteria and may also play a role in bacterial competition in this niche	0.08%	13.2
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.	3.09%	13.1
Bacteroides Host Order Match	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.08%	12.4
Bacteroides Host Order Match	RISB2590	Encarsia pergandiella Order: Hymenoptera	associated with thelytokous parthenogenetic reproduction in Encarsia, a genus of parasitoid wasps	0.08%	12.0
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.	1.93%	11.9
Yersinia Host Order Match	RISB0407	Anaphes nitens Order: Hymenoptera	None	1.93%	11.9
Spiroplasma Host Order Match	RISB0613	Lariophagus distinguendus Order: Hymenoptera	induces cytoplasmic incompatibility (CI)	0.23%	11.0
Corynebacterium Host Order Match	RISB1285	Aphidius colemani Order: Hymenoptera	Repelling parasitism	0.02%	10.4
Spiroplasma Host Order Match	RISB0284	Formica Order: Hymenoptera	None	0.23%	10.2
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	0.11%	10.1
Burkholderia gladioli Species-level Match	RISB1172	Lagria villosa Order: Coleoptera	process a cryptic gene cluster that codes for the biosynthesis of a novel antifungal polyketide with a glutarimide pharmacophore, which led to the discovery of the gladiofungins as previously-overlooked components of the antimicrobial armory of the beetle symbiont	0.02%	10.0
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	0.11%	9.9
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	0.46%	9.8
Acinetobacter sp. CS-2 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)	0.03%	9.7
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.	0.63%	9.6
Burkholderia gladioli Species-level Match	RISB1729	Lagria hirta Order: Coleoptera	the symbionts inhibit the growth of antagonistic fungi on the eggs of the insect host, indicating that the Lagria-associated Burkholderia have evolved from plant pathogenic ancestors into insect defensive mutualists	0.02%	9.3
Clostridium sp. AWRP Species-level Match	RISB2301	Pyrrhocoris apterus Order: Hemiptera	could play an important role for the insect by degrading complex dietary components, providing nutrient supplementation, or detoxifying noxious chemicals (e.g. cyclopropenoic fatty acids or gossypol) in the diet	0.02%	9.2
Clostridium sp. OS1-26 Species-level Match	RISB2301	Pyrrhocoris apterus Order: Hemiptera	could play an important role for the insect by degrading complex dietary components, providing nutrient supplementation, or detoxifying noxious chemicals (e.g. cyclopropenoic fatty acids or gossypol) in the diet	0.01%	9.2
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	3.09%	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	0.03%	9.0
Candidatus Carsonella ruddii (Diaphorina cf. continua) Species-level Match	RISB0394	Cacopsylla pyricola Order: Hemiptera	Carsonella produces most essential amino acids (EAAs) for C. pyricola, Psyllophila complements the genes missing in Carsonella for the tryptophan pathway and synthesizes some vitamins and carotenoids	0.04%	9.0
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	0.11%	8.9
Acinetobacter sp. CS-2 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	0.03%	8.9
Burkholderia gladioli Species-level Match	RISB1604	Lagria villosa Order: Coleoptera	Bacteria produce icosalide, an unusual two-tailed lipocyclopeptide antibiotic,which is active against entomopathogenic bacteria, thus adding to the chemical armory protecting beetle offspring	0.02%	8.8
Acinetobacter pittii Species-level Match	RISB1977	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	0.02%	8.8
Klebsiella pneumoniae Species-level Match	RISB1994	Diatraea saccharalis Order: Lepidoptera	possess cellulose degrading activity	3.09%	8.8
Lactobacillus sp. ESL0681 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.	0.10%	8.5
Bombilactobacillus bombi Species-level Match	RISB0617	Spodoptera frugiperda Order: Lepidoptera	degrade amygdalin	3.10%	8.4
Lactobacillus sp. ESL0785 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.	0.07%	8.4
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	0.63%	8.3
Paenibacillus sp. JDR-2 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	0.06%	8.3
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	0.46%	8.2
Blattabacterium cuenoti Species-level Match	RISB0133	Panesthiinae Order: Blattodea	enables hosts to subsist on a nutrient-poor diet; endosymbiont genome erosions are associated with repeated host transitions to an underground life	0.08%	8.0
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.	0.04%	7.6
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	0.04%	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	0.04%	7.4
Kosakonia sp. SMBL-WEM22 Species-level Match	RISB0810	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-16 oxidation pathway	0.05%	6.5
Paenibacillus sp. JDR-2 Species-level Match	RISB0813	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-9 oxidation pathway	0.06%	6.5
Escherichia coli Species-level Match	RISB2120	Galleria mellonella Order: Lepidoptera	mediate trans-generational immune priming	0.46%	6.3
Blattabacterium cuenoti Species-level Match	RISB0518	Cryptocercus punctulatus Order: Blattodea	collaborative arginine biosynthesis	0.08%	5.8
Providencia sp. PROV252 Species-level Match	RISB1574	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.03%	5.8
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	0.63%	5.6
Paenibacillus sp. JDR-2 Species-level Match	RISB2098	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.06%	5.6
Blattabacterium cuenoti Species-level Match	RISB0093	Blattella germanica Order: Blattodea	obligate endosymbiont	0.08%	5.5
Staphylococcus hominis Species-level Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	0.02%	5.3
Staphylococcus hominis Species-level Match	RISB1071	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.02%	5.2
Flavobacterium johnsoniae Species-level Match	RISB0659	Melanaphis bambusae Order: Hemiptera	None	0.10%	5.1
Candidatus Carsonella ruddii (Diaphorina cf. continua) Species-level Match	RISB0748	Diaphorina citri Order: Hemiptera	None	0.04%	5.0
Francisella	RISB1907	Bombyx mori Order: Lepidoptera	After infection with F. tularensis, the induction of melanization and nodulation, which are immune responses to bacterial infection, were inhibited in silkworms. Pre-inoculation of silkworms with F. tularensis enhanced the expression of antimicrobial peptides and resistance to infection by pathogenic bacteria.	0.04%	5.0
Lactococcus	RISB0131	Ceratitis capitata Order: Diptera	The intestinal microbiota structure was significantly influenced by the probiotic treatment while still maintaining a stable core dominant community of Enterobacteriacea. The colony with these microbiome had the most improved potential functions in terms of gut microbes as well as the carbohydrates active enzymes most improved potential functions.	0.04%	5.0
Candidatus Erwinia haradaeae Species-level Match	RISB1632	Lachninae Order: Hemiptera	None	0.03%	5.0
Treponema	RISB2377	termite Order: Blattodea	when grown together, two termite-gut Treponema species influence each other's gene expression in a far more comprehensive and nuanced manner than might have been predicted based on the results of previous studies on the respective pure cultures	0.02%	4.9
Yersinia	RISB0492	Cimex hemipterus Order: Hemiptera	the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides	1.93%	4.4
Lactococcus	RISB2305	Pyrrhocoris apterus Order: Hemiptera	could play an important role for the insect by degrading complex dietary components, providing nutrient supplementation, or detoxifying noxious chemicals (e.g. cyclopropenoic fatty acids or gossypol) in the diet	0.04%	4.3
Rickettsiella	RISB2479	Acyrthosiphon pisum Order: Hemiptera	changes the insects’ body color from red to green in natural populations, the infection increased amounts of blue-green polycyclic quinones, whereas it had less of an effect on yellow-red carotenoid pigments	0.02%	4.2
Lactococcus	RISB0967	Oulema melanopus Order: Coleoptera	contribute to the decomposition of complex carbohydrates, fatty acids, or polysaccharides in the insect gut. It might also contribute to the improvement of nutrient availability.	0.04%	3.6
Rickettsiella	RISB2262	Acyrthosiphon pisum Order: Hemiptera	against this entomopathogen Pandora neoaphidis, reduce mortality and also decrease fungal sporulation on dead aphids which may help protect nearby genetically identical insects	0.02%	3.5
Vibrio	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	2.21%	3.5
Rickettsiella	RISB1739	Acyrthosiphon pisum Order: Hemiptera	in an experiment with a single-injected isolate of Rickettsiella sp. wasps were also attracted to plants fed on by aphids without secondary symbionts	0.02%	3.0
Proteus	RISB0001	Leptinotarsa decemlineata Order: Coleoptera	produces toxic hydrogen cyanide (HCN) and a mandelonitrile-producing cyanoglucoside, amygdalin, which protect the insect from predation	0.08%	2.8
Shewanella	RISB1924	Anopheles gambiae Order: Diptera	may be related with mediating adaptation to different ecological niches or in shaping specific adult behaviors including mating	0.04%	2.6
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.08%	2.2
Proteus	RISB2315	Aedes aegypti Order: Diptera	upregulates AMP gene expression, resulting in suppression of DENV infection in the mosquito gut epithelium	0.08%	2.2
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	0.06%	2.1
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.02%	1.8
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	0.06%	1.7
Bradyrhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	0.14%	1.7
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.02%	1.7
Nostoc	RISB0812	Hypothenemus hampei Order: Coleoptera	might contribute to caffeine breakdown using the C-18 oxidation pathway	0.06%	1.5
Actinomyces	RISB1234	Hermetia illucens Order: Diptera	provides the tools for degrading of a broad range of substrates	0.02%	1.3
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	0.06%	1.3
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.03%	1.1
Proteus	RISB2460	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	0.08%	1.1
Nocardioides	RISB1914	Hyles euphorbiae Order: Lepidoptera	able to degrade alkaloids and/or latex	0.31%	1.1
Chryseobacterium	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.10%	0.7
Aquitalea	RISB2089	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.02%	0.6
Peribacillus	RISB1877	Aedes aegypti Order: Diptera	gut microbiome	0.13%	0.4
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.06%	0.4
Chryseobacterium	RISB1874	Aedes aegypti Order: Diptera	gut microbiome	0.10%	0.4
Cupriavidus	RISB0694	Alydus tomentosus Order: Hemiptera	None	0.37%	0.4
Achromobacter	RISB1869	Aedes aegypti Order: Diptera	gut microbiome	0.04%	0.3
Chryseobacterium	RISB0015	Aedes aegypti Order: Diptera	None	0.10%	0.1
Neisseria	RISB0512	Plutella xylostella Order: Lepidoptera	None	0.05%	0.1
Achromobacter	RISB0383	Aphis gossypii Order: Hemiptera	None	0.04%	0.0
Legionella	RISB1687	Polyplax serrata Order: Phthiraptera	None	0.04%	0.0
Paraburkholderia	RISB0125	Physopelta gutta Order: Hemiptera	None	0.04%	0.0
Treponema	RISB0169	Reticulitermes flaviceps Order: Blattodea	None	0.02%	0.0
Metabacillus	RISB0902	Myzus persicae Order: Hemiptera	None	0.02%	0.0
Vagococcus	RISB0042	Aldrichina grahami Order: Diptera	None	0.02%	0.0
Helicobacter	RISB0662	Melanaphis bambusae Order: Hemiptera	None	0.02%	0.0