SRR6033678 - Apis mellifera

Basic Information

Run: SRR6033678

Assay Type: WGS

Bioproject: PRJNA407112

Biosample: SAMN07634927

Bytes: 76906163

Center Name: COLUMBIA

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: SINGLE

Library Selection: RANDOM PCR

Platform: ILLUMINA

Quality Control Information

Filter Percentage: 0.0059

QC Average Length: 147

Retained Reads: -

Geographic Information

Country: Georgia

Continent: Asia

Location Name: Georgia

Latitude/Longitude: 42.0681 N 42.4403 E

Sample Information

Host: Apis mellifera

Isolation: Whole body homogenate

Biosample Model: Metagenome or environmental

Collection Date: 2015-08-01

Taxonomic Classification

Potential Symbionts

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
Gilliamella apicola
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.
15.83%
55.8
Bifidobacterium asteroides
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
0.05%
40.1
Burkholderia cepacia
RISB2389
Apis mellifera
Order: Hymenoptera
None
0.86%
35.9
Gilliamella apicola
RISB0177
Apis cerana
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
15.83%
35.8
Bartonella
RISB1673
Apis mellifera
Order: Hymenoptera
a gut symbiont of insects and that the adaptation to blood-feeding insects facilitated colonization of the mammalian bloodstream
0.90%
33.5
Snodgrassella alvi
RISB1423
Bombus spp.
Order: Hymenoptera
The bumble bee microbiome slightly increases survivorship when the host is exposed to selenate
14.30%
31.2
Gilliamella apicola
RISB1945
Apis cerana
Order: Hymenoptera
None
15.83%
30.8
Snodgrassella alvi
RISB1947
Apis cerana
Order: Hymenoptera
None
14.30%
29.3
Bifidobacterium asteroides
RISB0175
Apis cerana
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
0.05%
20.1
Streptomyces sp. T12
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
0.04%
19.0
Streptomyces sp. T12
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
0.04%
18.7
Spiroplasma sp. SV19
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.
0.01%
18.3
Streptomyces sp. T12
RISB1134
mud dauber wasp
Order: Hymenoptera
secondary metabolites derived from a Streptomyces sp. displayed significant inhibitory activity against hexokinase II
0.04%
17.4
Stenotrophomonas maltophilia
RISB2004
Trichogramma chilonis
Order: Hymenoptera
could significantly increase both female count
0.11%
16.0
Burkholderia cepacia
RISB2390
Bombus sonorus
Order: Hymenoptera
None
0.86%
15.9
Lactobacillus apis
RISB1556
Apis florea
Order: Hymenoptera
None
0.74%
15.7
Providencia sp. PROV024
RISB0984
Nasonia vitripennis
Order: Hymenoptera
may highly associated with diapause
0.01%
15.7
Pseudomonas sp. CIP-10
RISB1564
Liometopum apiculatum
Order: Hymenoptera
None
0.18%
15.2
Serratia symbiotica
RISB2331
Camponotus japonicus
Order: Hymenoptera
None
0.14%
15.1
Erwinia amylovora
RISB0403
Anaphes nitens
Order: Hymenoptera
None
0.01%
15.0
Escherichia coli
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
2.50%
11.8
Arsenophonus
RISB0982
Vespula penalica
Order: Hymenoptera
Arsenophonus sp. has been negatively associated with honeybee hive health
0.02%
11.5
Klebsiella pneumoniae
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.
0.64%
10.6
Corynebacterium
RISB1285
Aphidius colemani
Order: Hymenoptera
Repelling parasitism
0.01%
10.4
Arsenophonus
RISB0428
Nasonia vitripennis
Order: Hymenoptera
male killing
0.02%
10.3
Yersinia
RISB0407
Anaphes nitens
Order: Hymenoptera
None
0.26%
10.3
Escherichia coli
RISB0128
Tribolium castaneum
Order: Coleoptera
may produce 4,8-dimethyldecanal (DMD) production that is strongly associated with attraction to females and host pheromone communication
2.50%
10.2
Pantoea sp. X85
RISB0118
Nezara viridula
Order: Hemiptera
plays an important role in interactions between insects and plants and could therefore be considered a valuable target for the development of sustainable pest control strategies;transmitted bacteria impacted plant chemical defenses and were able to degrade toxic plant metabolites, aiding the shield bug in its nutrition
0.15%
10.2
Serratia symbiotica
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
0.14%
10.1
Buchnera aphidicola
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
0.08%
10.1
Bacillus cereus
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.
0.05%
10.1
Arsenophonus
RISB0366
Pachycrepoideus vindemmiae
Order: Hymenoptera
None
0.02%
10.0
Klebsiella sp. KPN54798
RISB2187
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.
0.02%
10.0
Enterobacter sp. T2
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
0.02%
10.0
Candidatus Pantoea carbekii
RISB1046
Halyomorpha halys
Order: Hemiptera
provides its host with essential nutrients, vitamins, cofactors and protection of the most vulnerable stages of early development (1st nymphal stages). Pantoea carbekii is highly stress tolerant, especially once secreted to cover the eggs, by its unique biofilm-formation properties, securing host offspring survival
0.01%
10.0
Pseudomonas sp. CIP-10
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
0.18%
10.0
Buchnera aphidicola
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
0.08%
9.8
Serratia symbiotica
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
0.14%
9.7
Klebsiella sp. KPN54798
RISB2304
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
Enterobacter sp. T2
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
0.02%
9.2
Burkholderia cepacia
RISB0709
Nilaparvata lugens
Order: Hemiptera
BsNLG8 significantly inhibited the growth of phytopathogenic fungi and also demonstrated the ability to produce siderophores, which explains its antagonistic mechanism.
0.86%
9.2
Stenotrophomonas maltophilia
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.
0.11%
9.1
Bacillus cereus
RISB2489
Anticarsia gemmatalis
Order: Lepidoptera
allow the adaptation of this insect to plants rich in protease inhibitors, minimizing the potentially harmful consequences of protease inhibitors from some of this insect host plants, such as soybean
0.05%
9.0
Candidatus Schneideria nysicola
RISB0872
Nysius sp.
Order: Hemiptera
synthesize four B vitamins(Pan, pantothenate;Fol, folate; Rib, riboflavin; Pyr, pyridoxine) and five Essential Amino Acids(Ile, isoleucine; Val, valine; Lys, lysine; Thr, threonine; Phe, phenylalanine)
0.01%
9.0
Buchnera aphidicola
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
0.08%
8.9
Pantoea sp. X85
RISB0119
Nezara viridula
Order: Hemiptera
plays an important role in interactions between insects and plants and could therefore be considered a valuable target for the development of sustainable pest control strategies.
0.15%
8.7
Enterobacter ludwigii
RISB1543
Helicoverpa zea
Order: Lepidoptera
two immunity-related genes glucose oxidase (GOX) and lysozyme (LYZ) were more highly expressed in both salivary glands and midguts compared with MgCl2 solution-treated caterpillars
0.08%
8.7
Pseudomonas sp. CIP-10
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)
0.18%
8.5
Bifidobacterium asteroides
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
0.05%
8.5
Lactobacillus sp. IBH004
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
Candidatus Sodalis pierantonius
RISB2035
Sitophilus oryzae
Order: Coleoptera
endosymbiont dynamics parallels numerous transcriptional changes in weevil developing adults and affects several biological processes, including metabolism and development
0.02%
8.4
Frischella perrara
RISB2028
Diceroprocta semicincta
Order: Hemiptera
causes the formation of a scab-like structure on the gut epithelium of its host
1.80%
8.4
Morganella morganii
RISB0772
Delia antiqua
Order: Diptera
showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively
0.10%
8.4
Escherichia coli
RISB2120
Galleria mellonella
Order: Lepidoptera
mediate trans-generational immune priming
2.50%
8.3
Morganella morganii
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
0.10%
8.1
Spiroplasma poulsonii
RISB1346
Drosophila melanogaster
Order: Diptera
S. poulsonii protects its host against parasitoid wasps and nematodes by the action of toxins from the family of Ribosome Inactivating Proteins
0.15%
8.0
Morganella morganii
RISB1867
Costelytra zealandica
Order: Coleoptera
Female beetles were previously shown to use phenol as their sex pheromone produced by symbiotic bacteria in the accessory or colleterial gland
0.10%
7.9
Stenotrophomonas maltophilia
RISB1227
Delia antiqua
Order: Diptera
six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids
0.11%
7.8
Spiroplasma poulsonii
RISB2264
Drosophila melanogaster
Order: Diptera
Spiroplasma coopts the yolk transport and uptake machinery to colonize the germ line and ensure efficient vertical transmission
0.15%
7.7
Candidatus Sodalis pierantonius
RISB0972
Sitophilus oryzae
Order: Coleoptera
produce vitamins and essential amino acids required for insect development and cuticle biosynthesis
0.02%
7.0
Candidatus Sodalis pierantonius
RISB0251
Sitophilus oryzae
Order: Coleoptera
may infulence immunity, metabolism, metal control, apoptosis, and bacterial stress response
0.02%
6.8
Bacillus cereus
RISB2237
Anticarsia gemmatalis
Order: Lepidoptera
mitigation of the negative effects of proteinase inhibitors produced by the host plant
0.05%
6.8
Salmonella enterica
RISB0413
Melanaphis sacchari
Order: Hemiptera
None
1.63%
6.6
Acinetobacter calcoaceticus
RISB0017
Scirpophaga incertulas
Order: Lepidoptera
degrade Chlorpyrifos and Chlorantraniliprole in vitro
0.01%
6.1
Providencia sp. PROV024
RISB1574
Bactrocera tau
Order: Diptera
could attract male and female B. tau
0.01%
5.7
Bombilactobacillus bombi
RISB0617
Spodoptera frugiperda
Order: Lepidoptera
degrade amygdalin
0.31%
5.7
Staphylococcus epidermidis
RISB1070
Oryctes rhinoceros
Order: Coleoptera
gut microbe
0.01%
5.2
Candidatus Regiella
RISB1370
Sitobion avenae
Order: Hemiptera
Regiella infection decreased the intrinsic rate of increase (rm) of aphids at 25 °C and 28 °C. However, at 31 °C, the effect of Regiella on the rm varied depending on the aphid genotype and density. Thus, the negative effects of this endosymbiont on its host were environmentally dependent.
0.02%
5.0
Acetobacter
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
0.02%
5.0
Candidatus Erwinia haradaeae
RISB1632
Lachninae
Order: Hemiptera
None
0.01%
5.0
Candidatus Kirkpatrickella diaphorinae
RISB0222
Diaphorina citri
Order: Hemiptera
None
0.01%
5.0
Candidatus Regiella
RISB1819
Sitobion avenae
Order: Hemiptera
In R. insecticola-infected aphid lines, there were increases in plasticities for developmental times of first and second instar nymphs and for fecundity, showing novel functional roles of bacterial symbionts in plant-insect interactions.
0.02%
4.8
Candidatus Regiella
RISB1363
Sitobion avenae
Order: Hemiptera
R. insecticola-infected aphids were more predated by the ladybird Hippodamia variegata irrespective of host plants and did not improve defences against coccinellid predators or metabolic rates on any host plants
0.02%
4.2
Neisseria
RISB0512
Plutella xylostella
Order: Lepidoptera
None
4.08%
4.1
Citrobacter
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
0.08%
3.6
Acetobacter
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.
0.02%
3.6
Citrobacter
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
0.08%
3.5
Citrobacter
RISB0517
Leptinotarsa decemlineata
Order: Coleoptera
affect the cellular and humoral immunity of the insect, increasing its susceptibility to Bacillus thuringiensis var. tenebrionis (morrisoni) (Bt)
0.08%
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
0.04%
2.7
Yersinia
RISB0492
Cimex hemipterus
Order: Hemiptera
the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides
0.26%
2.7
Shewanella
RISB1924
Anopheles gambiae
Order: Diptera
may be related with mediating adaptation to different ecological niches or in shaping specific adult behaviors including mating
0.01%
2.6
Acetobacter
RISB0184
Drosophila melanogaster
Order: Diptera
enhancing the brain levels of tyrosine decarboxylase 2 (Tdc2), which is an enzyme that synthesizes octopamine (OA)
0.02%
2.3
Proteus
RISB2315
Aedes aegypti
Order: Diptera
upregulates AMP gene expression, resulting in suppression of DENV infection in the mosquito gut epithelium
0.04%
2.2
Streptococcus
RISB2625
Galleria mellonella
Order: Lepidoptera
suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme
0.02%
2.0
Xenorhabdus
RISB1372
Spodoptera frugiperda
Order: Lepidoptera
the products of the symbiont gene cluster inhibit Spodoptera frugiperda phenoloxidase activity
0.02%
1.9
Leclercia
RISB1757
Spodoptera frugiperda
Order: Lepidoptera
degradation of lambda-cyhalothrin, deltamethrin, chlorpyrifos ethyl, lufenuron and spinosyn
0.01%
1.8
Corynebacterium
RISB0363
Pagiophloeus tsushimanus
Order: Coleoptera
terpenoid-degrading: the highest degradation rates of D-camphor, linalool, and eucalyptol
0.01%
1.8
Corynebacterium
RISB0531
Helicoverpa armigera
Order: Lepidoptera
Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera
0.01%
1.7
Streptococcus
RISB2624
Reticulitermes flavipes
Order: Blattodea
can be broken down into substances such as carbon dioxide, ammonia and acetic acid
0.02%
1.7
Vibrio
RISB1810
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.28%
1.6
Rhizobium
RISB0135
Coccinella septempunctata
Order: Coleoptera
be commonly found in plant roots and they all have nitrogen fixation abilities
0.01%
1.6
Xenorhabdus
RISB2270
Acyrthosiphon pisum
Order: Hemiptera
have the gene PIN1 encoding the protease inhibitor protein against aphids
0.02%
1.5
Halomonas
RISB1808
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.01%
1.3
Streptococcus
RISB2604
Homona magnanima
Order: Lepidoptera
influence the growth of Bacillus thuringiensis in the larvae
0.02%
1.2
Leclercia
RISB1758
Spodoptera frugiperda
Order: Lepidoptera
may influence the metabolization of pesticides in insects
0.01%
1.2
Proteus
RISB2460
Bombyx mori
Order: Lepidoptera
degradation of cellulose, xylan, pectin and starch
0.04%
1.0
Mycobacterium
RISB1156
Nicrophorus concolor
Order: Coleoptera
produces Antimicrobial compounds
0.37%
1.0
Cronobacter
RISB0247
Tenebrio molitor
Order: Coleoptera
may be indirectly involved in the digestion of PE
0.01%
1.0
Aeromonas
RISB2456
Bombyx mori
Order: Lepidoptera
able to utilize the CMcellulose and xylan
0.06%
0.9
Aeromonas
RISB2086
Aedes aegypti
Order: Diptera
axenic larvae cannot develop
0.06%
0.6
Aeromonas
RISB1145
Tenebrio molitor
Order: Coleoptera
degrading plastics
0.06%
0.4
Legionella
RISB1687
Polyplax serrata
Order: Phthiraptera
None
0.13%
0.1
Cupriavidus
RISB0694
Alydus tomentosus
Order: Hemiptera
None
0.05%
0.1
Halomonas
RISB1374
Bemisia tabaci
Order: Hemiptera
None
0.01%
0.0
Flavobacterium
RISB0659
Melanaphis bambusae
Order: Hemiptera
None
0.01%
0.0

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