SRR6130757 - Drosophila suzukii

Basic Information

Run: SRR6130757

Assay Type: WGS

Bioproject: PRJNA412893

Biosample: SAMN07731412

Bytes: 197784195

Center Name: CORNELL UNIVERSITY

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: PAIRED

Library Selection: PCR

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: Ithaca NY

Latitude/Longitude: 42.52 N 77.00 W

Sample Information

Host: Drosophila suzukii

Isolation: lo.m.2.3

Biosample Model: Metagenome or environmental

Collection Date: 2016-11

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
Arthrobacter sp. DNA4 Species-level Match Host Order Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	9.05%	27.3
Arthrobacter sp. NicSoilB8 Species-level Match Host Order Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	2.81%	21.1
Klebsiella michiganensis Species-level Match Host Order Match	RISB1052	Bactrocera dorsalis Order: Diptera	K. michiganensis BD177 has the strain-specific ability to provide three essential amino acids (phenylalanine, tryptophan and methionine) and two vitamins B (folate and riboflavin) to B. dorsalis	0.03%	18.9
Arthrobacter sp. YN Species-level Match Host Order Match	RISB0769	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.59%	18.9
Pseudomonas aeruginosa Species-level Match	RISB0364	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	11.92%	18.7
Morganella morganii Species-level Match Host Order Match	RISB0772	Delia antiqua Order: Diptera	showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively	0.03%	18.3
Pseudomonas protegens Species-level Match Host Order Match	RISB1224	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.40%	18.1
Enterobacter ludwigii Species-level Match Host Order Match	RISB1223	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.33%	18.0
Morganella morganii Species-level Match Host Order Match	RISB0008	Phormia regina Order: Diptera	deterred oviposition by female stable flies; The flies' oviposition decisions appear to be guided by bacteria-derived semiochemicals as the bacteria	0.03%	18.0
Klebsiella michiganensis Species-level Match Host Order Match	RISB1131	Bactrocera dorsalis Order: Diptera	promotes host resistance to low-temperature stress by stimulating its arginine and proline metabolism pathway in adult Bactrocera dorsalis	0.03%	17.8
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	0.13%	17.7
Morganella morganii Species-level Match Host Order Match	RISB0611	Bactrocera dorsalis Order: Diptera	may hydrolysing nitrogenous waste and providing metabolizable nitrogen for B. dorsalis	0.03%	16.8
Pseudomonas protegens Species-level Match Host Order Match	RISB1398	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.40%	16.7
Enterobacter ludwigii Species-level Match Host Order Match	RISB1397	Delia antiqua Order: Diptera	suppressed Beauveria bassiana conidia germination and hyphal growth	0.33%	16.7
Klebsiella pneumoniae Species-level Match Host Order Match	RISB1771	Muscidae Order: Diptera	None	1.45%	16.5
Escherichia coli Species-level Match Host Order Match	RISB1769	Calliphoridae Order: Diptera	None	1.45%	16.5
Enterococcus faecalis Species-level Match Host Order Match	RISB0095	Bactrocera minax Order: Diptera	egrade phenols in unripe citrus in B. minax larvae	0.13%	16.1
Acetobacter Host Order Match	RISB1865	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	0.81%	15.8
Raoultella sp. XY-1 Species-level Match Host Order Match	RISB1575	Bactrocera tau Order: Diptera	could attract male and female B. tau	0.02%	15.7
Serratia symbiotica Species-level Match Host Order Match	RISB0055	Episyrphus balteatus Order: Diptera	None	0.15%	15.2
Enterobacter hormaechei Species-level Match Host Order Match	RISB1331	Zeugodacus cucurbitae Order: Diptera	None	0.08%	15.1
Bacillus 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	0.04%	15.0
Buchnera aphidicola Species-level Match Host Order Match	RISB0051	Episyrphus balteatus Order: Diptera	None	0.03%	15.0
Acetobacter Host Order Match	RISB0961	Drosophila melanogaster Order: Diptera	The exist of Acetobacter had a balancing effect on food ingestion when carbohydrate levels were high in the warmer months, stabilizing fitness components of flies across the year.	0.81%	14.4
Citrobacter Host Order Match	RISB1503	Bactrocera dorsalis Order: Diptera	Pesticide-degrading bacteria were frequently detected from pesticide-resistant insects. Susceptible insects became resistant after inoculation of the pesticide-degrading symbiont	0.04%	13.6
Citrobacter Host Order Match	RISB0192	Hermetia illucens Order: Diptera	can directly promote the expression of two gene families related to intestinal protein metabolism: Hitryp serine protease trypsin family and Himtp metallopeptidase family	0.04%	13.4
Bacillus 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	0.04%	13.3
Acetobacter Host Order Match	RISB0184	Drosophila melanogaster Order: Diptera	enhancing the brain levels of tyrosine decarboxylase 2 (Tdc2), which is an enzyme that synthesizes octopamine (OA)	0.81%	13.1
Exiguobacterium Host Order Match	RISB0007	Phormia regina Order: Diptera	prompted oviposition by flies; The flies' oviposition decisions appear to be guided by bacteria-derived semiochemicals as the bacteria	0.14%	12.8
Sodalis 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.	0.10%	12.8
Citrobacter Host Order Match	RISB1221	Delia antiqua Order: Diptera	six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids	0.04%	12.7
Comamonas Host Order Match	RISB2021	Bactrocera dorsalis Order: Diptera	This group in the immature stages may be helping the insects to cope with oxidative stress by supplementing available oxygen.	0.24%	12.7
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.	0.08%	12.5
Bacillus 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)	0.04%	12.3
Aeromonas Host Order Match	RISB2086	Aedes aegypti Order: Diptera	axenic larvae cannot develop	1.45%	12.0
Sodalis Host Order Match	RISB2471	Glossina morsitans Order: Diptera	retains a thiamine ABC transporter (tbpAthiPQ) believed to salvage thiamine	0.10%	11.6
Sodalis Host Order Match	RISB2531	Glossina spp. Order: Diptera	quorum sensing primes the oxidative stress response of endosymbiont	0.10%	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	1.45%	10.8
Comamonas Host Order Match	RISB1875	Aedes aegypti Order: Diptera	gut microbiome	0.24%	10.5
Staphylococcus Host Order Match	RISB1881	Aedes aegypti Order: Diptera	gut microbiome	0.08%	10.4
Streptomyces Host Order Match	RISB0962	Drosophila melanogaster Order: Diptera	None	0.27%	10.3
Comamonas Host Order Match	RISB2020	Bactrocera dorsalis Order: Diptera	None	0.24%	10.2
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	0.15%	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	0.03%	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	0.03%	9.8
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	0.15%	9.7
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	1.45%	9.2
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	0.15%	9.0
Raoultella sp. XY-1 Species-level Match	RISB2226	Leptinotarsa decemlineata Order: Coleoptera	Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)	0.02%	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.	0.13%	7.7
Salmonella enterica Species-level Match	RISB0413	Melanaphis sacchari Order: Hemiptera	None	1.38%	6.4
Streptomyces	RISB0334	Philanthus triangulum Order: Hymenoptera	S. philanthi protect the offspring from opportunistic pathogens by producing antibiotics ,the beewolf protects S. philanthi from oxidative and nitrosative damage by producing protective enzymes and embalming the symbiont in a secretion containing long-chain hydrocarbons	0.27%	5.3
Pantoea vagans Species-level Match	RISB1842	Macrotermes natalensis Order: Blattodea	None	0.14%	5.1
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	0.08%	5.1
Zymobacter palmae Species-level Match	RISB1324	Vespa mandarinia Order: Hymenoptera	None	0.05%	5.1
Streptomyces	RISB2316	Philanthinus quattuordecimpunctatus Order: Hymenoptera	host cultivate the actinomycete in specialized antennal gland reservoirs. Then symbionts are transferred to the larval cocoon, where they provide protection against pathogenic fungi by producing at least nine different antibiotics.	0.27%	4.9
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	0.07%	3.8
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	0.04%	3.4
Lonsdalea	RISB1321	Vespa mandarinia Order: Hymenoptera	None	2.91%	2.9
Yersinia	RISB0492	Cimex hemipterus Order: Hemiptera	the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides	0.27%	2.7
Aeromonas	RISB2456	Bombyx mori Order: Lepidoptera	able to utilize the CMcellulose and xylan	1.45%	2.3
Micrococcus	RISB2276	Ostrinia nubilalis Order: Lepidoptera	extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties	0.32%	2.2
Xanthomonas	RISB0217	Xylocopa appendiculata Order: Hymenoptera	strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products	0.07%	2.0
Corynebacterium	RISB0363	Pagiophloeus tsushimanus Order: Coleoptera	terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol	0.12%	1.9
Aeromonas	RISB1145	Tenebrio molitor Order: Coleoptera	degrading plastics	1.45%	1.8
Corynebacterium	RISB0531	Helicoverpa armigera Order: Lepidoptera	Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera	0.12%	1.8
Glutamicibacter	RISB0606	Phthorimaea operculella Order: Lepidoptera	could degrade the major toxic α-solanine and α-chaconine in potatoes	0.18%	1.5
Duganella	RISB2152	Osmia bicornis Order: Hymenoptera	may be essential to support Osmia larvae in their nutrient uptake	0.21%	1.5
Vibrio	RISB1810	Monochamus galloprovincialis Order: Coleoptera	Have the ability for degradation of cellulose, proteins and starch	0.07%	1.4
Exiguobacterium	RISB0582	Aleurodicus rugioperculatus Order: Hemiptera	may indirectly affect whitefly oviposition	0.14%	1.0
Corynebacterium	RISB2360	Bombyx mori Order: Lepidoptera	producing lipase in a gut environment	0.12%	0.9
Exiguobacterium	RISB1152	Tenebrio molitor Order: Coleoptera	degrading plastics	0.14%	0.5
Yersinia	RISB0407	Anaphes nitens Order: Hymenoptera	None	0.27%	0.3
Glutamicibacter	RISB0438	Helicoverpa armigera Order: Lepidoptera	None	0.18%	0.2
Flavobacterium	RISB0659	Melanaphis bambusae Order: Hemiptera	None	0.11%	0.1