SRR5940741 - Musca domestica

Basic Information

Run: SRR5940741

Assay Type: WGS

Bioproject: PRJNA385554

Biosample: SAMN07135756

Bytes: 2974578757

Center Name: NANYANG TECHNOLOGICAL UNIVERSITY

Sequencing Information

Instrument: Illumina HiSeq 2000

Library Layout: PAIRED

Library Selection: RANDOM

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: State College

Latitude/Longitude: 40.814 N 77.87083 W

Sample Information

Host: Musca domestica

Isolation: Poultry Farm

Biosample Model: Metagenome or environmental

Collection Date: 2012

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
Wolbachia Host Order Match	RISB0766	Aedes fluviatilis Order: Diptera	The presence of Wolbachia pipientis improves energy performance in A. fluviatilis cells; it affects the regulation of key energy sources such as lipids, proteins, and carbohydrates, making the distribution of actin more peripheral and with extensions that come into contact with neighboring cells.	8.26%	23.3
Wolbachia Host Order Match	RISB0779	Drosophila melanogaster Order: Diptera	Wolbachia infection affects differential gene expression in Drosophila testis.Genes involved in carbohydrate metabolism, lysosomal degradation, proteolysis, lipid metabolism, and immune response were upregulated in the presence of Wolbachia	8.26%	23.1
Wolbachia Host Order Match	RISB1408	Anastrepha fraterculus Order: Diptera	Wolbachia is the only known reproductive symbiont present in these morphotypes. Wolbachia reduced the ability for embryonic development in crosses involving cured females and infected males within each morphotype (uni-directional CI).	8.26%	22.9
Lactococcus lactis Species-level Match Host Order Match	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.	0.66%	20.7
Serratia symbiotica Species-level Match Host Order Match	RISB0055	Episyrphus balteatus Order: Diptera	None	5.01%	20.0
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB1227	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	2.15%	19.9
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	4.49%	19.5
Bacillus thuringiensis Species-level Match Host Order Match	RISB0820	Simulium tani Order: Diptera	show resistance to some antibiotics	3.73%	19.4
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB1141	Hermetia illucens Order: Diptera	enhance the insect growth performance when reared on an unbalanced nutritionally poor diet	2.15%	19.0
Lactococcus lactis Species-level Match Host Order Match	RISB0113	Bactrocera dorsalis Order: Diptera	increase the resistance of B. dorsalis to β-cypermethrin by regulating cytochrome P450 (P450) enzymes and α-glutathione S-transferase (GST) activities	0.66%	18.7
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB1401	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	2.15%	18.5
Enterococcus faecalis Species-level Match Host Order Match	RISB1411	Bactrocera dorsalis Order: Diptera	female Bactrocera dorsalis fed Enterococcus faecalis and Klebsiella oxytoca enriched diets lived longer but had lower fecundity	0.91%	18.5
Staphylococcus Host Order Match	RISB0427	Anopheles sinensis Order: Diptera	be identified in each part of the hyperendemic area of this study has a potential role to interact with malaria parasites.	5.61%	18.1
Sodalis glossinidius Species-level Match Host Order Match	RISB2256	Glossina palpalis Order: Diptera	flies harbouring this symbiont have three times greater probability of being infected by trypanosomes than flies without the symbiont.	0.21%	17.9
Psychrobacter sp. WY6 Species-level Match Host Order Match	RISB1773	Calliphoridae Order: Diptera	it shows physiological adaptation to survival in warmer temperatures and has been previously associated with food spoilage	0.35%	17.8
Psychrobacter sp. P11F6 Species-level Match Host Order Match	RISB1773	Calliphoridae Order: Diptera	it shows physiological adaptation to survival in warmer temperatures and has been previously associated with food spoilage	0.26%	17.7
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	2.66%	17.7
Bacillus cereus Species-level Match Host Order Match	RISB1872	Aedes aegypti Order: Diptera	gut microbiome	1.93%	17.2
Bacillus cereus Species-level Match Host Order Match	RISB1701	Phlebotomus papatasi Order: Diptera	None	1.93%	16.9
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	0.91%	16.9
Klebsiella sp. CTHL.F3a Species-level Match Host Order Match	RISB0917	Aedes aegypti Order: Diptera	could impact larval development (e.g., spermidine)	0.85%	16.9
Sodalis glossinidius Species-level Match Host Order Match	RISB2471	Glossina morsitans Order: Diptera	retains a thiamine ABC transporter (tbpAthiPQ) believed to salvage thiamine	0.21%	16.7
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	6.85%	16.7
Klebsiella sp. CTHL.F3a Species-level Match Host Order Match	RISB1573	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.85%	16.6
Sodalis glossinidius Species-level Match Host Order Match	RISB2531	Glossina spp. Order: Diptera	quorum sensing primes the oxidative stress response of endosymbiont	0.21%	16.6
Lactococcus lactis Species-level Match Host Order Match	RISB1167	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.66%	16.2
Staphylococcus Host Order Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	5.61%	15.9
Buchnera aphidicola Species-level Match Host Order Match	RISB0051	Episyrphus balteatus Order: Diptera	None	0.80%	15.8
Pseudomonas sp. CIP-10 Species-level Match	RISB2224	Leptinotarsa decemlineata Order: Coleoptera	Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)	6.85%	15.2
Streptomyces sp. T12 Species-level 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	6.20%	15.2
Candidatus Cardinium Host Order Match	RISB1439	Lutzomyia evansi Order: Diptera	‘Candidatus Cardinium’ is a recently described bacterium from the Bacteroidetes group involved in diverse reproduction alterations of its arthropod hosts (including cytoplasmic incompatibility, parthenogenesis, and feminization) similar to Wolbachia	0.09%	15.1
Serratia symbiotica Species-level Match	RISB0576	Acyrthosiphon pisum Order: Hemiptera	process of regression from winged to wingless morph was inhibited by Serratia symbiotica. The existence of the symbiont did not affect the body mass and fecundity of adult aphids, but it increased the body weight of nymphs and temporally increased the quantity of a primary symbiont, Buchnera aphidicola	5.01%	15.0
Streptomyces sp. T12 Species-level 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	6.20%	14.9
Serratia symbiotica Species-level Match	RISB0179	Acyrthosiphon pisum Order: Hemiptera	harboring Serratia improved host aphid growth and fecundity but reduced longevity. Serratia defends aphids against P. japonica by impeding the predator's development and predation capacity, and modulating its foraging behavior	5.01%	14.5
Acinetobacter Host Order Match	RISB0768	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	1.16%	14.4
Acinetobacter Host Order Match	RISB0421	Anopheles sinensis Order: Diptera	Acinetobacter species increase the resistance of An. gambiae to Plasmodium development partly by the induction of anti-Plasmodium factors in Imd pathway	1.16%	14.2
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	4.49%	13.8
Streptomyces sp. T12 Species-level Match	RISB1134	mud dauber wasp Order: Hymenoptera	secondary metabolites derived from a Streptomyces sp. displayed significant inhibitory activity against hexokinase II	6.20%	13.5
Paenibacillus Host Order Match	RISB0774	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.16%	13.4
Rhodococcus Host Order Match	RISB0775	Delia antiqua Order: Diptera	showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.16%	13.4
Pseudomonas sp. CIP-10 Species-level Match	RISB0700	Nilaparvata lugens Order: Hemiptera	Pseudomonas sp. composition and abundance correlated with BPH survivability	6.85%	13.4
Ignatzschineria Host Order Match	RISB0562	Chrysomya megacephala Order: Diptera	Ignatzschineria indica is a Gram-negative bacterium commonly associated with maggot infestation and myiasis, a probable marker for myiasis diagnosis	0.33%	13.3
Shewanella Host Order Match	RISB1924	Anopheles gambiae Order: Diptera	may be related with mediating adaptation to different ecological niches or in shaping specific adult behaviors including mating	0.14%	12.7
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	4.49%	12.2
Acinetobacter Host Order Match	RISB2083	Aedes aegypti Order: Diptera	axenic larvae cannot develop	1.16%	11.7
Vagococcus Host Order Match	RISB0042	Aldrichina grahami Order: Diptera	None	1.45%	11.5
Providencia Host Order Match	RISB1001	Anastrepha obliqua Order: Diptera	improve the sexual competitiveness of males	0.42%	11.3
Chryseobacterium Host Order Match	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.65%	11.2
Providencia Host Order Match	RISB1574	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.42%	11.1
Providencia Host Order Match	RISB1168	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.42%	11.0
Chryseobacterium Host Order Match	RISB1874	Aedes aegypti Order: Diptera	gut microbiome	0.65%	10.9
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	0.80%	10.8
Paenibacillus Host Order Match	RISB2098	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.16%	10.7
Rhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	9.15%	10.7
Chryseobacterium Host Order Match	RISB0015	Aedes aegypti Order: Diptera	None	0.65%	10.7
Staphylococcus	RISB0945	Callosobruchus maculatus Order: Coleoptera	The strain encodes complete biosynthetic pathways for the production of B vitamins and amino acids, including tyrosine; A carbohydrate-active enzyme search revealed that the genome codes for a number of digestive enzymes, reflecting the nutritional ecology of C. maculatus	5.61%	10.6
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	0.80%	10.6
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.	0.91%	8.5
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	0.27%	8.2
Vibrio	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	6.57%	7.9
Clostridium	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	2.55%	6.8
Blattabacterium cuenoti Species-level Match	RISB0518	Cryptocercus punctulatus Order: Blattodea	collaborative arginine biosynthesis	0.27%	6.0
Blattabacterium cuenoti Species-level Match	RISB0093	Blattella germanica Order: Blattodea	obligate endosymbiont	0.27%	5.7
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	0.80%	5.7
Zymobacter palmae Species-level Match	RISB1324	Vespa mandarinia Order: Hymenoptera	None	0.17%	5.2
Paenibacillus	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.	0.16%	5.2
Candidatus Cardinium	RISB0223	Bemisia tabaci Order: Hemiptera	Cardinium could inhibit the defense response of the host plant and decrease the detoxification metabolism ability of the host whitefly, decrease the expression of detoxification metabolism genes, especially the uridine 5'-diphospho-glucuronyltransferase and P450 genes,	0.09%	5.1
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	2.42%	4.4
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	2.42%	4.1
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	2.42%	3.6
Clostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	2.55%	3.6
Symbiopectobacterium	RISB1889	Pseudococcus longispinus Order: Hemiptera	a nested symbiotic arrangement, where one bacterium lives inside another bacterium,occurred in building the mosaic metabolic pathways seen in mitochondria and plastids	0.24%	3.6
Halomonas	RISB1808	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	2.13%	3.5
Clostridium	RISB1959	Pyrrhocoridae Order: Hemiptera	None	2.55%	2.6
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.16%	2.5
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.16%	2.3
Candidatus Cardinium	RISB2290	Sogatella furcifera Order: Hemiptera	dual infection with Cardinium and Wolbachia induced strong cytoplasmic incompatibility (CI) in a single host	0.09%	2.3
Bacteroides	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	0.16%	2.2
Halomonas	RISB1374	Bemisia tabaci Order: Hemiptera	None	2.13%	2.1
Rhodococcus	RISB0430	Rhodnius prolixus Order: Hemiptera	Rhodnius prolixus harbouring R. rhodnii developed faster, had higher survival, and laid more eggs	0.16%	2.1
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.14%	1.2
Rhodococcus	RISB1087	Rhodnius prolixus Order: Hemiptera	supply enzymatic biosynthesis of B-complex vitamins	0.16%	1.2
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	1.02%	1.0
Treponema	RISB0169	Reticulitermes flaviceps Order: Blattodea	None	0.80%	0.8
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.42%	0.8
Neisseria	RISB0512	Plutella xylostella Order: Lepidoptera	None	0.28%	0.3
Helicobacter	RISB0662	Melanaphis bambusae Order: Hemiptera	None	0.15%	0.2
Legionella	RISB1687	Polyplax serrata Order: Phthiraptera	None	0.11%	0.1
Cupriavidus	RISB0694	Alydus tomentosus Order: Hemiptera	None	0.11%	0.1