SRR6033687 - Apis mellifera

Basic Information

Run: SRR6033687

Assay Type: WGS

Bioproject: PRJNA407112

Biosample: SAMN07634941

Bytes: 79015170

Center Name: COLUMBIA

Sequencing Information

Instrument: Illumina MiSeq

Library Layout: SINGLE

Library Selection: RANDOM PCR

Platform: ILLUMINA

Geographic Information

Country: USA

Continent: North America

Location Name: USA: Washington

Latitude/Longitude: 46.0177 N 118.6975 W

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.
0.18%
40.2
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%
35.1
Lactobacillus
RISB0475
Apis mellifera
Order: Hymenoptera
A. kunkeei alleviated acetamiprid-induced symbiotic microbiota dysregulation and mortality in honeybees
0.08%
32.1
Lactobacillus
RISB0368
Apis mellifera
Order: Hymenoptera
increased bee survival after S. marcescens infection, inhibited its proliferation in the gut
0.08%
31.9
Lactobacillus
RISB0615
Apis mellifera
Order: Hymenoptera
Improve learning and memory performance
0.08%
30.9
Burkholderia
RISB2389
Apis mellifera
Order: Hymenoptera
None
0.34%
30.3
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
0.18%
20.2
Pseudomonas sp. CIP-10
RISB1564
Liometopum apiculatum
Order: Hymenoptera
None
5.18%
20.2
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
1.11%
20.1
Deinococcus sp. NW-56
RISB1649
Camponotus japonicus
Order: Hymenoptera
Four new aminoglycolipids, deinococcucins A–D, were discovered from a Deinococcus sp. strain isolated from the gut of queen carpenter ants, Camponotus japonicus, showed functional ability of inducing the quinone reductase production in host cells
0.01%
19.9
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
1.11%
19.8
Streptomyces sp. INR7
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
0.01%
19.0
Stenotrophomonas maltophilia
RISB2004
Trichogramma chilonis
Order: Hymenoptera
could significantly increase both female count
2.05%
18.0
Snodgrassella alvi
RISB1423
Bombus spp.
Order: Hymenoptera
The bumble bee microbiome slightly increases survivorship when the host is exposed to selenate
0.05%
16.9
Gilliamella apicola
RISB1945
Apis cerana
Order: Hymenoptera
None
0.18%
15.2
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
0.10%
15.1
Snodgrassella alvi
RISB1947
Apis cerana
Order: Hymenoptera
None
0.05%
15.1
Wolbachia
RISB0190
Encarsia formosa
Order: Hymenoptera
Wolbachia's parthenogenesis-induction feminization factor (piff) gene modulates sex determination in Encarsia formosa by regulating doublesex (dsx) expression. When Wolbachia is removed, female-specific dsx decreases while male-specific dsx increases, resulting in haploid male offspring
0.02%
15.0
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
5.18%
15.0
Wolbachia
RISB1584
Nasonia vitripennis
Order: Hymenoptera
there were few significant changes in immune or reproductive proteins between samples with and without Wolbachia infection. Differentially expressed proteins were involved in the binding process, catalytic activity, and the metabolic process
0.02%
14.8
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
0.04%
13.8
Wolbachia
RISB2601
Asobara tabida
Order: Hymenoptera
Wolbachia is necessary for oogenesis in these A. tabida strains,aposymbiotic female wasps were completely incapable of producing mature oocytes and therefore could not reproduce
0.02%
13.6
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)
5.18%
13.5
Nocardia
RISB0947
Acromyrmex
Order: Hymenoptera
Pseudonocardia in the Acromyrmex leaf-cutter ants as a protective partner against the entomopathogenic fungus Metarhizium
0.01%
12.4
Nocardia
RISB1218
Mycocepurus smithii
Order: Hymenoptera
produce secondary metabolites with antibiotic activity that protects the fungus garden against pathogens
0.01%
12.1
Xanthomonas
RISB0217
Xylocopa appendiculata
Order: Hymenoptera
strains biodegraded polyethylene terephthalate PET powder, broke it into its degradation products
0.04%
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.
1.71%
11.7
Burkholderia
RISB2149
Osmia bicornis
Order: Hymenoptera
may be essential to support Osmia larvae in their nutrient uptake
0.34%
11.6
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.
2.05%
11.1
Burkholderia
RISB2101
Formica exsecta
Order: Hymenoptera
produce antibiotics
0.34%
10.7
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.
0.59%
10.6
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
0.46%
10.5
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
0.20%
10.2
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.
0.13%
10.1
Bifidobacterium
RISB1944
Apis cerana
Order: Hymenoptera
None
0.10%
10.1
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
Yersinia
RISB0407
Anaphes nitens
Order: Hymenoptera
None
0.02%
10.0
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
0.01%
10.0
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
0.68%
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
0.01%
9.8
Stenotrophomonas maltophilia
RISB1227
Delia antiqua
Order: Diptera
six bacteria protect larvae from infection with the entomopathogen Beauveria bassiana through symbiotic bacterium-derived organic acids
2.05%
9.8
Acinetobacter sp. SCLZS86
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
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
0.46%
9.7
Acinetobacter sp. SCLZS86
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
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
0.01%
8.8
Enterobacter sp. T2
RISB2221
Leptinotarsa decemlineata
Order: Coleoptera
Colorado potato beetle (Leptinotarsa decemlineata) larvae exploit bacteria in their oral secretions to suppress antiherbivore defenses in tomato (Solanum lycopersicum)
0.46%
8.8
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
0.68%
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
0.01%
8.4
Arthrobacter sp. Helios
RISB0769
Delia antiqua
Order: Diptera
showed significant volatile inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively
0.02%
8.3
Streptococcus
RISB2625
Galleria mellonella
Order: Lepidoptera
suppress bacteria ingested with food by producing bacteriocin and by releasing a lysozyme like enzyme
6.27%
8.3
Acinetobacter sp. SCLZS86
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
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
Streptococcus
RISB2624
Reticulitermes flavipes
Order: Blattodea
can be broken down into substances such as carbon dioxide, ammonia and acetic acid
6.27%
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
Klebsiella pneumoniae
RISB2459
Bombyx mori
Order: Lepidoptera
degradation of cellulose, xylan, pectin and starch
1.71%
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.
0.08%
7.7
Enterococcus faecalis
RISB1411
Bactrocera dorsalis
Order: Diptera
female Bactrocera dorsalis fed Enterococcus faecalis and Klebsiella oxytoca enriched diets lived longer but had lower fecundity
0.08%
7.6
Streptococcus
RISB2604
Homona magnanima
Order: Lepidoptera
influence the growth of Bacillus thuringiensis in the larvae
6.27%
7.5
Klebsiella pneumoniae
RISB1994
Diatraea saccharalis
Order: Lepidoptera
possess cellulose degrading activity
1.71%
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
0.08%
7.4
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
Micrococcus sp. KBS0714
RISB2276
Ostrinia nubilalis
Order: Lepidoptera
extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties
0.38%
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,
0.01%
7.2
Corynebacterium sp. CNCTC7651
RISB0531
Helicoverpa armigera
Order: Lepidoptera
Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera
0.44%
7.1
Candidatus Portiera aleyrodidarum
RISB1973
Bemisia tabaci
Order: Hemiptera
a primary symbiont, which compensates for the deficient nutritional composition of its food sources
0.01%
7.0
Micrococcus sp. 2A
RISB2276
Ostrinia nubilalis
Order: Lepidoptera
extreme cellulolytic enzymes, at extreme (pH 12) conditions, exhibited cellulolytic properties
0.05%
6.9
Corynebacterium sp. Z-1
RISB0531
Helicoverpa armigera
Order: Lepidoptera
Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera
0.06%
6.7
Corynebacterium sp. FDAARGOS 1242
RISB0531
Helicoverpa armigera
Order: Lepidoptera
Corynebacterium sp. 2-TD, mediates the toxicity of the 2-tridecanone to H. armigera
0.05%
6.7
Sphingomonas sp. AP4-R1
RISB0134
Spodoptera frugiperda
Order: Lepidoptera
provide a protective effect to against chlorantraniliprole stress to S. frugiperda
0.01%
6.7
Frischella perrara
RISB2028
Diceroprocta semicincta
Order: Hemiptera
causes the formation of a scab-like structure on the gut epithelium of its host
0.03%
6.6
Escherichia coli
RISB2120
Galleria mellonella
Order: Lepidoptera
mediate trans-generational immune priming
0.68%
6.5
Lactiplantibacillus plantarum
RISB0674
Drosophila melanogaster
Order: Diptera
could effectively inhibit fungal spore germinations
0.01%
6.0
Salmonella enterica
RISB0413
Melanaphis sacchari
Order: Hemiptera
None
0.59%
5.6
Staphylococcus epidermidis
RISB1070
Oryctes rhinoceros
Order: Coleoptera
gut microbe
0.25%
5.5
Staphylococcus hominis
RISB1881
Aedes aegypti
Order: Diptera
gut microbiome
0.12%
5.4
Bombilactobacillus bombi
RISB0617
Spodoptera frugiperda
Order: Lepidoptera
degrade amygdalin
0.01%
5.4
Staphylococcus hominis
RISB1071
Oryctes rhinoceros
Order: Coleoptera
gut microbe
0.12%
5.3
Brevundimonas sp. PAMC22021
RISB1703
Phlebotomus papatasi
Order: Diptera
None
0.06%
5.1
Lactiplantibacillus plantarum
RISB0608
Drosophila melanogaster
Order: Diptera
None
0.01%
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
0.04%
4.3
Rhodococcus
RISB0775
Delia antiqua
Order: Diptera
showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively
0.04%
3.3
Leucobacter
RISB0771
Delia antiqua
Order: Diptera
showed significant contact inhibition activity against fungal entomopathogen Fusarium moniliforme, Botryosphaeria dothidea and both Fusarium oxysporum respectively
0.02%
3.3
Carnobacterium
RISB1378
Thitarodes pui
Order: Lepidoptera
promote the growth of Thitarodes larvae, elevate bacterial diversity, maintain a better balance of intestinal flora, and act as a probiotic in Thitarodes
0.01%
3.1
Ignatzschineria
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
0.04%
3.0
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
Carnobacterium
RISB1693
Plutella xylostella
Order: Lepidoptera
play an important role in the breakdown of plant cell walls, detoxification of plant phenolics, and synthesis of amino acids.
0.01%
2.5
Yersinia
RISB0492
Cimex hemipterus
Order: Hemiptera
the disruption of the abundant Yersinia possibly could be related to the enhanced susceptibility towards the insecticides
0.02%
2.4
Blautia
RISB0091
Hyphantria cunea
Order: Lepidoptera
enhance the compatibility of invasive pests to new hosts and enable more rapid adaptation to new habitats.
0.02%
2.1
Rhodococcus
RISB0430
Rhodnius prolixus
Order: Hemiptera
Rhodnius prolixus harbouring R. rhodnii developed faster, had higher survival, and laid more eggs
0.04%
2.0
Actinomyces
RISB1234
Hermetia illucens
Order: Diptera
provides the tools for degrading of a broad range of substrates
0.61%
1.9
Halomonas
RISB1808
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.33%
1.7
Carnobacterium
RISB1692
Plutella xylostella
Order: Lepidoptera
participate in the synthesis of host lacking amino acids histidine and threonine
0.01%
1.6
Neisseria
RISB0512
Plutella xylostella
Order: Lepidoptera
None
1.59%
1.6
Bradyrhizobium
RISB0135
Coccinella septempunctata
Order: Coleoptera
be commonly found in plant roots and they all have nitrogen fixation abilities
0.03%
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
Leuconostoc
RISB0812
Hypothenemus hampei
Order: Coleoptera
might contribute to caffeine breakdown using the C-18 oxidation pathway
0.02%
1.4
Vibrio
RISB1810
Monochamus galloprovincialis
Order: Coleoptera
Have the ability for degradation of cellulose, proteins and starch
0.04%
1.4
Clostridium
RISB0028
Sesamia inferens
Order: Lepidoptera
degrade Chlorpyrifos and Chlorantraniliprole in vitro
0.04%
1.1
Rhodococcus
RISB1087
Rhodnius prolixus
Order: Hemiptera
supply enzymatic biosynthesis of B-complex vitamins
0.04%
1.1
Gordonia
RISB1912
Hyles euphorbiae
Order: Lepidoptera
able to degrade alkaloids and/or latex
0.09%
0.9
Aeromonas
RISB2456
Bombyx mori
Order: Lepidoptera
able to utilize the CMcellulose and xylan
0.02%
0.8
Nocardioides
RISB1914
Hyles euphorbiae
Order: Lepidoptera
able to degrade alkaloids and/or latex
0.06%
0.8
Mycobacterium
RISB1156
Nicrophorus concolor
Order: Coleoptera
produces Antimicrobial compounds
0.10%
0.7
Priestia
RISB0839
Helicoverpa armigera
Order: Lepidoptera
producing amylase
0.39%
0.7
Aeromonas
RISB2086
Aedes aegypti
Order: Diptera
axenic larvae cannot develop
0.02%
0.6
Chryseobacterium
RISB2092
Aedes aegypti
Order: Diptera
axenic larvae cannot develop
0.01%
0.6
Aeromonas
RISB1145
Tenebrio molitor
Order: Coleoptera
degrading plastics
0.02%
0.4
Halomonas
RISB1374
Bemisia tabaci
Order: Hemiptera
None
0.33%
0.3
Leucobacter
RISB1876
Aedes aegypti
Order: Diptera
gut microbiome
0.02%
0.3
Chryseobacterium
RISB1874
Aedes aegypti
Order: Diptera
gut microbiome
0.01%
0.3
Clostridium
RISB1959
Pyrrhocoridae
Order: Hemiptera
None
0.04%
0.0
Cupriavidus
RISB0694
Alydus tomentosus
Order: Hemiptera
None
0.03%
0.0
Chryseobacterium
RISB0015
Aedes aegypti
Order: Diptera
None
0.01%
0.0
Legionella
RISB1687
Polyplax serrata
Order: Phthiraptera
None
0.01%
0.0

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