SRR6033666 - Apis mellifera

Basic Information

Run: SRR6033666

Assay Type: WGS

Bioproject: PRJNA407112

Biosample: SAMN07634931

Bytes: 75447610

Center Name: COLUMBIA

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: SINGLE

Library Selection: RANDOM PCR

Platform: ILLUMINA

Geographic Information

Country: New Zealand

Continent: Oceania

Location Name: New Zealand: Hamilton

Latitude/Longitude: 37.7870 S 175.2793 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.
1.89%
41.9
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
0.03%
35.0
Burkholderia
RISB2389
Apis mellifera
Order: Hymenoptera
None
0.14%
30.1
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
1.89%
21.9
Snodgrassella alvi
RISB1423
Bombus spp.
Order: Hymenoptera
The bumble bee microbiome slightly increases survivorship when the host is exposed to selenate
4.16%
21.0
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
0.56%
19.5
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
0.56%
19.3
Snodgrassella alvi
RISB1947
Apis cerana
Order: Hymenoptera
None
4.16%
19.2
Streptomyces sp. T12
RISB1134
mud dauber wasp
Order: Hymenoptera
secondary metabolites derived from a Streptomyces sp. displayed significant inhibitory activity against hexokinase II
0.56%
17.9
Pseudomonas sp. CIP-10
RISB1564
Liometopum apiculatum
Order: Hymenoptera
None
2.32%
17.3
Gilliamella apicola
RISB1945
Apis cerana
Order: Hymenoptera
None
1.89%
16.9
Stenotrophomonas maltophilia
RISB2004
Trichogramma chilonis
Order: Hymenoptera
could significantly increase both female count
0.81%
16.7
Serratia symbiotica
RISB2331
Camponotus japonicus
Order: Hymenoptera
None
0.07%
15.1
Bifidobacterium
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
0.03%
15.0
Pseudomonas sp. FP830
RISB1564
Liometopum apiculatum
Order: Hymenoptera
None
0.02%
15.0
Lactobacillus apis
RISB1556
Apis florea
Order: Hymenoptera
None
0.01%
15.0
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
0.01%
13.8
Amycolatopsis
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
0.02%
13.4
Amycolatopsis
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
0.02%
13.1
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
2.32%
12.1
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
2.81%
12.1
Xanthomonas
RISB0217
Xylocopa appendiculata
Order: Hymenoptera
strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products
0.01%
12.0
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.
1.55%
11.6
Burkholderia
RISB2149
Osmia bicornis
Order: Hymenoptera
may be essential to support Osmia larvae in their nutrient uptake
0.14%
11.4
Massilia
RISB2151
Osmia bicornis
Order: Hymenoptera
may be essential to support Osmia larvae in their nutrient uptake
0.07%
11.4
Duganella
RISB2152
Osmia bicornis
Order: Hymenoptera
may be essential to support Osmia larvae in their nutrient uptake
0.03%
11.3
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
2.81%
10.5
Burkholderia
RISB2101
Formica exsecta
Order: Hymenoptera
produce antibiotics
0.14%
10.5
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.
0.35%
10.4
Yersinia
RISB0407
Anaphes nitens
Order: Hymenoptera
None
0.17%
10.2
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
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
0.07%
10.1
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
0.07%
10.1
Bacillus subtilis
RISB0481
Bombyx mori
Order: Lepidoptera
B. subtilis can generate a variety of primary and secondary metabolites, such as B vitamins and antimicrobial compounds, to provide micronutrients and enhance the pathogen resistance of their insect host; The antimicrobial compounds secreted by B. subtilis were the primary driving force for the reconstruction of intestinal microbiota
0.05%
10.1
Bacillus thuringiensis
RISB2177
Armadillidae
Order: Isopoda
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.
0.04%
10.0
Listeria monocytogenes
RISB2308
Drosophila melanogaster
Order: Diptera
L. monocytogenes infection disrupts host energy metabolism by depleting energy stores (triglycerides and glycogen) and reducing metabolic pathway activity (beta-oxidation and glycolysis). The infection affects antioxidant defense by reducing uric acid levels and alters amino acid metabolism. These metabolic changes are accompanied by melanization, potentially linked to decreased tyrosine levels.
0.04%
10.0
Bifidobacterium
RISB1944
Apis cerana
Order: Hymenoptera
None
0.03%
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
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.
0.81%
9.8
Acinetobacter sp. 10FS3-1
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)
0.01%
9.7
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
0.07%
9.6
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
0.07%
9.3
Frischella perrara
RISB2028
Diceroprocta semicincta
Order: Hemiptera
causes the formation of a scab-like structure on the gut epithelium of its host
2.57%
9.2
Staphylococcus xylosus
RISB2497
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
0.03%
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
Acinetobacter sp. 10FS3-1
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
0.01%
8.8
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
0.09%
8.7
Escherichia coli
RISB2120
Galleria mellonella
Order: Lepidoptera
mediate trans-generational immune priming
2.81%
8.6
Stenotrophomonas maltophilia
RISB1227
Delia antiqua
Order: Diptera
six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids
0.81%
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
Candidatus Portiera aleyrodidarum
RISB1193
Bemisia tabaci
Order: Hemiptera
synthesizing essential amino acid (e.g. tryptophan, leucine and L-Isoleucine), Bemisia tabaci provides vital nutritional support for growth, development and reproduction
0.03%
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
0.04%
8.3
Paenibacillus sp. FSL K6-1096
RISB0774
Delia antiqua
Order: Diptera
showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively
0.01%
8.3
Acinetobacter sp. 10FS3-1
RISB1500
Lymantria dispar
Order: Lepidoptera
Bacteria isolated from a host plant had a glycoside-degrading activity, which enhanced growth of the moth when larvae were fed on a toxin-containing diet
0.01%
8.1
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
0.04%
8.0
Candidatus Profftella armatura
RISB2147
Diaphorina citri
Order: Hemiptera
a defensive symbiont presumably of an obligate nature, which encoded horizontally acquired genes for synthesizing a novel polyketide toxin, diaphorin
0.01%
8.0
Citrobacter freundii
RISB0517
Leptinotarsa decemlineata
Order: Coleoptera
affect the cellular and humoral immunity of the insect, increasing its susceptibility to Bacillus thuringiensis var. tenebrionis (morrisoni) (Bt)
0.02%
7.9
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
0.04%
7.9
Candidatus Profftella armatura
RISB2005
Diaphorina citri
Order: Hemiptera
produce proteins involved in polyketide biosynthesis,which were up-regulated in CLas(+) insects (associated with citrus greening disease)
0.01%
7.8
Citrobacter freundii
RISB0127
Tribolium castaneum
Order: Coleoptera
may produce 4,8-dimethyldecanal (DMD) production that is strongly associated with attraction to females and host pheromone communication
0.02%
7.7
Citrobacter freundii
RISB1221
Delia antiqua
Order: Diptera
six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids
0.02%
7.7
Enterococcus faecalis
RISB0497
Cryptolestes ferrugineus
Order: Coleoptera
bacteria can degrade malathion, pirimiphos-methyl, and deltamethrin and utilize these insecticides as the carbon source in vitro.
0.02%
7.6
Enterococcus faecalis
RISB1411
Bactrocera dorsalis
Order: Diptera
female Bactrocera dorsalis fed Enterococcus faecalis and Klebsiella oxytoca enriched diets lived longer but had lower fecundity
0.02%
7.6
Klebsiella pneumoniae
RISB2459
Bombyx mori
Order: Lepidoptera
degradation of cellulose, xylan, pectin and starch
1.55%
7.6
Candidatus Profftella armatura
RISB2146
Diaphorina citri
Order: Hemiptera
encoded horizontally acquired genes for synthesizing a novel polyketide toxin, providing defense against natural enemies
0.01%
7.4
Enterococcus faecalis
RISB2042
Harpalus pensylvanicus
Order: Coleoptera
E. faecalis facilitate seed consumption by H. pensylvanicus, possibly by contributing digestive enzymes to their host
0.02%
7.4
Klebsiella pneumoniae
RISB1994
Diatraea saccharalis
Order: Lepidoptera
possess cellulose degrading activity
1.55%
7.3
Candidatus Portiera aleyrodidarum
RISB2289
Bemisia tabaci
Order: Hemiptera
encoding the capability to synthetize, or participate in the synthesis of, several amino acids and carotenoids,
0.03%
7.3
Salmonella enterica
RISB0413
Melanaphis sacchari
Order: Hemiptera
None
2.22%
7.2
Candidatus Portiera aleyrodidarum
RISB1973
Bemisia tabaci
Order: Hemiptera
a primary symbiont, which compensates for the deficient nutritional composition of its food sources
0.03%
7.0
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
Staphylococcus xylosus
RISB2247
Anticarsia gemmatalis
Order: Lepidoptera
mitigation of the negative effects of proteinase inhibitors produced by the host plant
0.03%
6.8
Corynebacterium sp. SCR221107
RISB0531
Helicoverpa armigera
Order: Lepidoptera
Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera
0.04%
6.7
Paenibacillus sp. FSL K6-1096
RISB0813
Hypothenemus hampei
Order: Coleoptera
might contribute to caffeine breakdown using the C-9 oxidation pathway
0.01%
6.4
Streptococcus
RISB2625
Galleria mellonella
Order: Lepidoptera
suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme
4.29%
6.3
Staphylococcus xylosus
RISB2246
Anticarsia gemmatalis
Order: Lepidoptera
Against plant-derived protease inhibitor; pest control
0.03%
6.1
Streptococcus
RISB2624
Reticulitermes flavipes
Order: Blattodea
can be broken down into substances such as carbon dioxide, ammonia and acetic acid
4.29%
5.9
Paenibacillus sp. FSL K6-1096
RISB2098
Aedes aegypti
Order: Diptera
axenic larvae cannot develop
0.01%
5.6
Streptococcus
RISB2604
Homona magnanima
Order: Lepidoptera
influence the growth of Bacillus thuringiensis in the larvae
4.29%
5.5
Bombilactobacillus bombi
RISB0617
Spodoptera frugiperda
Order: Lepidoptera
degrade amygdalin
0.03%
5.4
Brevundimonas sp. PAMC22021
RISB1703
Phlebotomus papatasi
Order: Diptera
None
0.05%
5.1
Cupriavidus pauculus
RISB0694
Alydus tomentosus
Order: Hemiptera
None
0.04%
5.0
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
0.03%
4.3
Proteus
RISB0001
Leptinotarsa decemlineata
Order: Coleoptera
produces toxic hydrogen cyanide (HCN) and a mandelonitrile-producing cyanoglucoside, amygdalin, which protect the insect from predation
0.01%
2.7
Neisseria
RISB0512
Plutella xylostella
Order: Lepidoptera
None
2.64%
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
0.17%
2.6
Micrococcus
RISB2276
Ostrinia nubilalis
Order: Lepidoptera
extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties
0.57%
2.5
Proteus
RISB2315
Aedes aegypti
Order: Diptera
upregulates AMP gene expression, resulting in suppression of DENV infection in the mosquito gut epithelium
0.01%
2.1
Bradyrhizobium
RISB0135
Coccinella septempunctata
Order: Coleoptera
be commonly found in plant roots and they all have nitrogen fixation abilities
0.19%
1.8
Vibrio
RISB1810
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.34%
1.7
Rhizobium
RISB0135
Coccinella septempunctata
Order: Coleoptera
be commonly found in plant roots and they all have nitrogen fixation abilities
0.02%
1.6
Actinomyces
RISB1234
Hermetia illucens
Order: Diptera
provides the tools for degrading of a broad range of substrates
0.26%
1.5
Halomonas
RISB1808
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.11%
1.4
Clostridium
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
0.01%
1.0
Aeromonas
RISB2456
Bombyx mori
Order: Lepidoptera
able to utilize the CMcellulose and xylan
0.02%
0.8
Gordonia
RISB1912
Hyles euphorbiae
Order: Lepidoptera
able to degrade alkaloids and/or latex
0.04%
0.8
Mycobacterium
RISB1156
Nicrophorus concolor
Order: Coleoptera
produces Antimicrobial compounds
0.05%
0.7
Aeromonas
RISB2086
Aedes aegypti
Order: Diptera
axenic larvae cannot develop
0.02%
0.6
Aeromonas
RISB1145
Tenebrio molitor
Order: Coleoptera
degrading plastics
0.02%
0.4
Halomonas
RISB1374
Bemisia tabaci
Order: Hemiptera
None
0.11%
0.1
Clostridium
RISB1959
Pyrrhocoridae
Order: Hemiptera
None
0.03%
0.0
Legionella
RISB1687
Polyplax serrata
Order: Phthiraptera
None
0.02%
0.0
Propionibacterium
RISB0490
Ceratitis capitata
Order: Diptera
None
0.02%
0.0
Helicobacter
RISB0662
Melanaphis bambusae
Order: Hemiptera
None
0.02%
0.0

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