SRR25391501 - Diptera

Basic Information

Run: SRR25391501

Assay Type: WGS

Bioproject: PRJNA997598

Biosample: SAMN36683887

Bytes: 598972892

Center Name: USDA ARS

Sequencing Information

Instrument: NextSeq 2000

Library Layout: PAIRED

Library Selection: RANDOM

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: Kansas

Latitude/Longitude: 39.01 N 98.48 W

Sample Information

Host: Diptera

Isolation: -

Biosample Model: MIMS.me,MIGS/MIMS/MIMARKS.host-associated

Collection Date: 2022-07

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.	9.48%	24.5
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	9.48%	24.3
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).	9.48%	24.2
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.	0.90%	20.9
Serratia marcescens Species-level Match Host Order Match	RISB1291	Aedes aegypti Order: Diptera	facilitates arboviral infection through a secreted protein named SmEnhancin, which digests membrane-bound mucins on the mosquito gut epithelia, thereby enhancing viral dissemination.	2.15%	20.8
Enterobacter sp. Colony194 Species-level Match Host Order 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	0.18%	20.2
Serratia marcescens Species-level Match Host Order Match	RISB0009	Phormia regina Order: Diptera	prompted oviposition by flies; The flies' oviposition decisions appear to be guided by bacteria-derived semiochemicals as the bacteria	2.15%	19.8
Enterobacter sp. Colony194 Species-level Match Host Order 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	0.18%	19.4
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	0.90%	18.9
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	0.59%	18.3
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	0.69%	18.2
Serratia marcescens Species-level Match Host Order Match	RISB0096	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	2.15%	18.2
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	0.59%	17.4
Bacillus thuringiensis Species-level Match Host Order Match	RISB0820	Simulium tani Order: Diptera	show resistance to some antibiotics	1.48%	17.2
Enterobacter sp. Colony194 Species-level Match Host Order Match	RISB1311	Ceratitis capitata Order: Diptera	it was shown to have positive effects in rearing efficiency when used as larval probiotics	0.18%	17.0
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	1.98%	17.0
Stenotrophomonas maltophilia Species-level Match Host Order Match	RISB1401	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.59%	16.9
Bacillus sp. Y1 Species-level Match Host Order Match	RISB0791	Anopheles barbirostris Order: Diptera	without this midgut flora showed delayed development to become adult	0.40%	16.8
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	0.69%	16.7
Bacillus cereus Species-level Match Host Order Match	RISB1872	Aedes aegypti Order: Diptera	gut microbiome	1.35%	16.6
Providencia rettgeri Species-level Match Host Order Match	RISB1001	Anastrepha obliqua Order: Diptera	improve the sexual competitiveness of males	0.76%	16.6
Lactococcus lactis Species-level Match Host Order Match	RISB1167	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.90%	16.5
Providencia rettgeri Species-level Match Host Order Match	RISB1169	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.76%	16.3
Acinetobacter sp. SWBY1 Species-level Match Host Order Match	RISB2083	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.70%	16.3
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	1.25%	16.2
Lactobacillus Host Order Match	RISB1866	Drosophila melanogaster Order: Diptera	The bacterial cells may thus be able to ameliorate the pH of the acidic region, by the release of weak bases.Additionally, the bacteria have a complex relationship with physiological processes which may affect ionic homeostasis in the gut, such as nutrition and immune function	1.22%	16.2
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	1.16%	16.2
Buchnera aphidicola Species-level Match Host Order Match	RISB0051	Episyrphus balteatus Order: Diptera	None	1.02%	16.0
Providencia alcalifaciens Species-level Match Host Order Match	RISB1168	Bactrocera dorsalis Order: Diptera	Promote the growth of larvae	0.33%	15.9
Lactobacillus Host Order Match	RISB0185	Drosophila melanogaster Order: Diptera	enhancing the brain levels of tyrosine decarboxylase 2 (Tdc2), which is an enzyme that synthesizes octopamine (OA)	1.22%	13.5
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	0.28%	13.2
Streptomyces sp. NBC_01324 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	3.75%	12.7
Lactobacillus Host Order Match	RISB1714	Drosophila melanogaster Order: Diptera	It has the potential to reduce IMI-induced susceptibility to infection.	1.22%	12.6
Streptomyces sp. NBC_01324 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	3.75%	12.5
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	3.42%	12.4
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	2.53%	12.4
Dysgonomonas Host Order Match	RISB1235	Hermetia illucens Order: Diptera	provides the tools for degrading of a broad range of substrates	0.18%	11.4
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	1.98%	11.3
Chryseobacterium Host Order Match	RISB2092	Aedes aegypti Order: Diptera	axenic larvae cannot develop	0.72%	11.3
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.	1.16%	11.2
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	1.02%	11.0
Chryseobacterium Host Order Match	RISB1874	Aedes aegypti Order: Diptera	gut microbiome	0.72%	11.0
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)	2.53%	10.9
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	1.02%	10.8
Chryseobacterium Host Order Match	RISB0015	Aedes aegypti Order: Diptera	None	0.72%	10.7
Vagococcus Host Order Match	RISB0042	Aldrichina grahami Order: Diptera	None	0.61%	10.6
Acinetobacter sp. SWBY1 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)	0.70%	10.4
Myroides Host Order Match	RISB0626	Musca altica Order: Diptera	None	0.16%	10.2
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	4.92%	9.9
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	1.98%	9.7
Pantoea ananatis Species-level Match	RISB1671	Spodoptera frugiperda Order: Lepidoptera	modulate plant defense, downregulated the activity of the plant defensive proteins polyphenol oxidase and trypsin proteinase inhibitors (trypsin PI) but upregulated peroxidase (POX) activity in tomatoresponses	0.39%	9.6
Clostridium sp. LQ25 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	0.34%	9.6
Acinetobacter sp. SWBY1 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	0.70%	9.5
Vibrio	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	8.10%	9.4
Clostridium sp. JS66 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	0.16%	9.4
Clostridium sp. DL-VIII 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	0.11%	9.3
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	0.19%	9.2
Pseudomonas sp. CIP-10 Species-level Match	RISB0700	Nilaparvata lugens Order: Hemiptera	Pseudomonas sp. composition and abundance correlated with BPH survivability	2.53%	9.0
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	0.49%	8.4
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.	0.69%	8.3
Pantoea ananatis Species-level Match	RISB0515	Laodelphax striatellus Order: Hemiptera	pathogenic to the host insect, raises the possibility of using the Lstr strain as a biological agent	0.39%	7.4
Klebsiella pneumoniae Species-level Match	RISB2459	Bombyx mori Order: Lepidoptera	degradation of cellulose, xylan, pectin and starch	1.16%	7.2
Rhizobium	RISB0135	Coccinella septempunctata Order: Coleoptera	be commonly found in plant roots and they all have nitrogen fixation abilities	5.41%	7.0
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,	1.25%	6.3
Blattabacterium cuenoti Species-level Match	RISB0518	Cryptocercus punctulatus Order: Blattodea	collaborative arginine biosynthesis	0.49%	6.2
Blattabacterium cuenoti Species-level Match	RISB0093	Blattella germanica Order: Blattodea	obligate endosymbiont	0.49%	5.9
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	0.49%	5.4
Staphylococcus epidermidis Species-level Match	RISB1070	Oryctes rhinoceros Order: Coleoptera	gut microbe	0.12%	5.3
Candidatus Erwinia haradaeae Species-level Match	RISB1632	Lachninae Order: Hemiptera	None	0.17%	5.2
Candidatus Megaera polyxenophila Species-level Match	RISB0587	Multiple species Order: None	None	0.10%	5.1
Bifidobacterium	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	0.10%	5.1
Weissella	RISB1982	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	0.13%	4.0
Bifidobacterium	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	0.10%	3.5
Streptococcus	RISB2625	Galleria mellonella Order: Lepidoptera	suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme	1.43%	3.5
Candidatus Cardinium	RISB2290	Sogatella furcifera Order: Hemiptera	dual infection with Cardinium and Wolbachia induced strong cytoplasmic incompatibility (CI) in a single host	1.25%	3.4
Candidatus Blochmanniella	RISB2542	Camponotus Order: Hymenoptera	Blochmannia provide essential amino acids to its host,Camponotus floridanus, and that it may also play a role in nitrogen recycling via its functional urease	0.12%	3.3
Bacteroides	RISB0256	Leptocybe invasa Order: Hymenoptera	Differences in Male-Killing Rickettsia Bacteria between Lineages of the Invasive Gall-Causing Pest Leptocybe invasa	0.91%	3.2
Candidatus Blochmanniella	RISB1827	Camponotus floridanus Order: Hymenoptera	a modulation of immune gene expression which may facilitate tolerance towards the endosymbionts and thus may contribute to their transovarial transmission	0.12%	3.2
Streptococcus	RISB2624	Reticulitermes flavipes Order: Blattodea	can be broken down into substances such as carbon dioxide, ammonia and acetic acid	1.43%	3.1
Bacteroides	RISB0090	Hyphantria cunea Order: Lepidoptera	enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.	0.91%	3.0
Bacteroides	RISB1183	Oryzaephilus surinamensis Order: Coleoptera	supplement precursors for the cuticle synthesis and thereby enhance desiccation resistance of its host	0.91%	3.0
Weissella	RISB0641	Formica Order: Hymenoptera	exhibited abilities in catabolizing sugars (sucrose, trehalose, melezitose and raffinose) known to be constituents of hemipteran honeydew	0.13%	2.9
Candidatus Blochmanniella	RISB2448	Camponotus floridanus Order: Hymenoptera	nutritional contribution of the bacteria to host metabolism by production of essential amino acids and urease-mediated nitrogen recycling	0.12%	2.9
Streptococcus	RISB2604	Homona magnanima Order: Lepidoptera	influence the growth of Bacillus thuringiensis in the larvae	1.43%	2.6
Yersinia	RISB0492	Cimex hemipterus Order: Hemiptera	the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides	0.12%	2.5
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	2.35%	2.4
Halomonas	RISB1808	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.89%	2.2
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.35%	2.1
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.35%	2.0
Paraclostridium	RISB0028	Sesamia inferens Order: Lepidoptera	degrade Chlorpyrifos and Chlorantraniliprole in vitro	0.25%	1.3
Neokomagataea	RISB1560	Oecophylla smaragdina Order: Hymenoptera	may be related with the formic acid production	0.31%	1.2
Corynebacterium	RISB2360	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.35%	1.1
Halomonas	RISB1374	Bemisia tabaci Order: Hemiptera	None	0.89%	0.9
Priestia	RISB0839	Helicoverpa armigera Order: Lepidoptera	producing amylase	0.51%	0.9
Cupriavidus	RISB0694	Alydus tomentosus Order: Hemiptera	None	0.64%	0.6
Treponema	RISB0169	Reticulitermes flaviceps Order: Blattodea	None	0.49%	0.5
Legionella	RISB1687	Polyplax serrata Order: Phthiraptera	None	0.28%	0.3
Helicobacter	RISB0662	Melanaphis bambusae Order: Hemiptera	None	0.22%	0.2
Dysgonomonas	RISB1481	Brachinus elongatulus Order: Coleoptera	None	0.18%	0.2
Metabacillus	RISB0902	Myzus persicae Order: Hemiptera	None	0.15%	0.2
Weissella	RISB1566	Liometopum apiculatum Order: Hymenoptera	None	0.13%	0.1
Yersinia	RISB0407	Anaphes nitens Order: Hymenoptera	None	0.12%	0.1
Bifidobacterium	RISB1944	Apis cerana Order: Hymenoptera	None	0.10%	0.1