Refine
Has Fulltext
- yes (25)
Is part of the Bibliography
- yes (25)
Year of publication
Document Type
- Journal article (24)
- Doctoral Thesis (1)
Language
- English (25) (remove)
Keywords
- Phylogenie (2)
- bee decline (2)
- foraging (2)
- honey bees (2)
- metabarcoding (2)
- next generation sequencing (2)
- solitary bees (2)
- 16S metabarcoding (1)
- 26S RDNA Data (1)
- Agrobacterium (1)
- Algen (1)
- Allorhizobium vitis (1)
- Alps (1)
- AmGr1 (1)
- AmGr2 (1)
- AmGr3 (1)
- American foulbrood (1)
- Angiopoietin-like 4 (1)
- Anticoagulants (1)
- Bacillus (1)
- Barcodes (1)
- Biologie (1)
- Bocas-del-Toro (1)
- Bone disease (1)
- COI (1)
- Coagulation factor IX (1)
- Coexpression (1)
- Colonial volvocales chlorophyta (1)
- Coumarin (1)
- DNA (1)
- DNA barcoding (1)
- DNS-Sequenz (1)
- Dasycladales chlorophyta (1)
- Endothelial growth-factor (1)
- European foulbrood (1)
- Evolution (1)
- Gene expression profiling (1)
- Halictidae (1)
- ITS2 (1)
- Land plants (1)
- Llullaillaco Volcano (1)
- Meliponini (1)
- Mesenchymal stem cells (1)
- Molecular systematics (1)
- Multiple myeloma (1)
- NGS (1)
- Nuclear RDNA (1)
- Orthoptera (1)
- Osmia bicornis (1)
- Osteogenic precursor cells (1)
- Paenibacillus (1)
- Paenibacterin (1)
- Pollen (1)
- Polymerase chain reaction (1)
- Profile distances (1)
- RBCL Gene-sequences (1)
- Ribosomale RNS (1)
- Secondary structure (1)
- Sekundärstruktur (1)
- Sporosarcina (1)
- Subtercola vilae (1)
- Ti plasmids (1)
- VKORC1 (1)
- Vitamin K epoxide reductase (1)
- Vitis vinifera (1)
- Warfarin (1)
- Williamsia sp. ARP1 (1)
- adaption (1)
- aerobiology (1)
- allergy (1)
- angiogenic cytokines (1)
- annotation (1)
- anti-microbial activit (1)
- arabidopsis thaliana (1)
- assembly (1)
- bacteria (1)
- bacterial community (1)
- bacterial genomics (1)
- bacterial pathogens (1)
- bacterial transmission (1)
- bee disease (1)
- bees (1)
- bioassays (1)
- biodiversity (1)
- biodiversity exploratories (1)
- chemical mimicry (1)
- chrysididae (1)
- cold adaptation (1)
- cuticular chemistry (1)
- cuticular hydrocarbons (1)
- de novo sequenced genomes (1)
- dendrobates pumilio (1)
- diet breadth (1)
- distance‐based specialization index (1)
- diversity (1)
- draft genome (1)
- ectoine biosynthesis (1)
- elevational gradient (1)
- environmental monitoring (1)
- evolutionary arms race (1)
- floral resources (1)
- food safety (1)
- foraging patterns (1)
- functional complementarity (1)
- functional redundancy (1)
- gene-expression (1)
- genome analysis (1)
- genomes of photosynthetic bacteria (1)
- glycine betaine biosynthesis (1)
- gray tree frogs (1)
- gustatory receptors (Grs) (1)
- gut bacteria (1)
- herbivores (1)
- high throughput sequencing (1)
- honeybee taste perception (1)
- hymenoptera (1)
- illumina MiSeq platform (1)
- in-vitro (1)
- interaction networks (1)
- larvae (1)
- male mating success (1)
- marrow stromal cells (1)
- mesenchymal stem-cells (1)
- microbiome (1)
- microbiome metabarcoding (1)
- microclimate (1)
- monoclonial gammopathy (1)
- nest microbiota (1)
- nutrition (1)
- nutritional ecology (1)
- oophaga pumilio (1)
- operational sex ratio (1)
- osmia (1)
- osmotic adaptation (1)
- paleoecology (1)
- palynolog (1)
- palynology (1)
- pathogen (1)
- pathogen vector (1)
- peripheral-blood (1)
- philanthidae (1)
- phyllosphere (1)
- phylogenetics (1)
- phylogenomics (1)
- phylogeny evolution (1)
- phylogeny of osmolyte biosynthesis (1)
- pied flycatchers (1)
- plant richness (1)
- plant-insect interactions (1)
- plant–insect interactions (1)
- plant–microbe–pollinator triangle (1)
- pollen (1)
- pollen metabarcoding (1)
- pollen nutrients (1)
- pollen provisions (1)
- pollination (1)
- pollination ecology (1)
- pollination network (1)
- pollinator decline (1)
- precedes multiple-myeloma (1)
- proboscis extension response (PER) (1)
- rRNA (1)
- sampling behavior (1)
- season (1)
- secondary invader (1)
- secondary structure (1)
- sequence (1)
- sequential mate choice (1)
- solitary bee (1)
- sugar responsiveness (1)
- systematic affiliation (1)
- temperature gradient (1)
- treefrogs hyla-gratiosa (1)
- undetermined significance (1)
- whole genome sequencing (1)
- wild bees (1)
Institute
Sonstige beteiligte Institutionen
ResearcherID
- D-1221-2009 (1)
EU-Project number / Contract (GA) number
- 289706 (1)
Background
Meta-barcoding of mixed pollen samples constitutes a suitable alternative to conventional pollen identification via light microscopy. Current approaches however have limitations in practicability due to low sample throughput and/or inefficient processing methods, e.g. separate steps for amplification and sample indexing.
Results
We thus developed a new primer-adapter design for high throughput sequencing with the Illumina technology that remedies these issues. It uses a dual-indexing strategy, where sample-specific combinations of forward and reverse identifiers attached to the barcode marker allow high sample throughput with a single sequencing run. It does not require further adapter ligation steps after amplification. We applied this protocol to 384 pollen samples collected by solitary bees and sequenced all samples together on a single Illumina MiSeq v2 flow cell. According to rarefaction curves, 2,000–3,000 high quality reads per sample were sufficient to assess the complete diversity of 95% of the samples. We were able to detect 650 different plant taxa in total, of which 95% were classified at the species level. Together with the laboratory protocol, we also present an update of the reference database used by the classifier software, which increases the total number of covered global plant species included in the database from 37,403 to 72,325 (93% increase).
Conclusions
This study thus offers improvements for the laboratory and bioinformatical workflow to existing approaches regarding data quantity and quality as well as processing effort and cost-effectiveness. Although only tested for pollen samples, it is furthermore applicable to other research questions requiring plant identification in mixed and challenging samples.
Bees need food of appropriate nutritional quality to maintain their metabolic functions. They largely obtain all required nutrients from floral resources, i.e., pollen and nectar. However, the diversity, composition and nutritional quality of floral resources varies with the surrounding environment and can be strongly altered in human-impacted habitats. We investigated whether differences in plant species richness as found in the surrounding environment correlated with variation in the floral diversity and nutritional quality of larval provisions (i.e., mixtures of pollen, nectar and salivary secretions) composed by the mass-provisioning stingless bee Tetragonula carbonaria (Apidae: Meliponini). We found that the floral diversity of larval provisions increased with increasing plant species richness. The sucrose and fat (total fatty acid) content and the proportion and concentration of the omega-6 fatty acid linoleic acid decreased, whereas the proportion of the omega-3 fatty acid linolenic acid increased with increasing plant species richness. Protein (total amino acid) content and amino acid composition did not change. The protein to fat (P:F) ratio, known to affect bee foraging, increased on average by more than 40% from plantations to forests and gardens, while the omega-6:3 ratio, known to negatively affect cognitive performance, decreased with increasing plant species richness. Our results suggest that plant species richness may support T. carbonaria colonies by providing not only a continuous resource supply (as shown in a previous study), but also floral resources of high nutritional quality.
Among the Microbacteriaceae the species of Subtercola and Agreia form closely associated clusters. Phylogenetic analysis demonstrated three major phylogenetic branches of these species. One of these branches contains the two psychrophilic species Subtercola frigoramans and Subtercola vilae, together with a larger number of isolates from various cold environments. Genomic evidence supports the separation of Agreia and Subtercola species. In order to gain insight into the ability of S. vilae to adapt to life in this extreme environment, we analyzed the genome with a particular focus on properties related to possible adaptation to a cold environment. General properties of the genome are presented, including carbon and energy metabolism, as well as secondary metabolite production. The repertoire of genes in the genome of S. vilae DB165\(^T\) linked to adaptations to the harsh conditions found in Llullaillaco Volcano Lake includes several mechanisms to transcribe proteins under low temperatures, such as a high number of tRNAs and cold shock proteins. In addition, S. vilae DB165\(^T\) is capable of producing a number of proteins to cope with oxidative stress, which is of particular relevance at low temperature environments, in which reactive oxygen species are more abundant. Most important, it obtains capacities to produce cryo-protectants, and to combat against ice crystal formation, it produces ice-binding proteins. Two new ice-binding proteins were identified which are unique to S. vilae DB165\(^T\). These results indicate that S. vilae has the capacity to employ different mechanisms to live under the extreme and cold conditions prevalent in Llullaillaco Volcano Lake.
Solitary bees are subject to a variety of pressures that cause severe population declines. Currently, habitat loss, temperature shifts, agrochemical exposure, and new parasites are identified as major threats. However, knowledge about detrimental bacteria is scarce, although they may disturb natural microbiomes, disturb nest environments, or harm the larvae directly. To address this gap, we investigated 12 Osmia bicornis nests with deceased larvae and 31 nests with healthy larvae from the same localities in a 16S ribosomal RNA (rRNA) gene metabarcoding study. We sampled larvae, pollen provisions, and nest material and then contrasted bacterial community composition and diversity in healthy and deceased nests. Microbiomes of pollen provisions and larvae showed similarities for healthy larvae, whilst this was not the case for deceased individuals. We identified three bacterial taxa assigned to Paenibacillus sp. (closely related to P. pabuli/amylolyticus/xylanexedens), Sporosarcina sp., and Bacillus sp. as indicative for bacterial communities of deceased larvae, as well as Lactobacillus for corresponding pollen provisions. Furthermore, we performed a provisioning experiment, where we fed larvae with untreated and sterilized pollens, as well as sterilized pollens inoculated with a Bacillus sp. isolate from a deceased larva. Untreated larval microbiomes were consistent with that of the pollen provided. Sterilized pollen alone did not lead to acute mortality, while no microbiome was recoverable from the larvae. In the inoculation treatment, we observed that larval microbiomes were dominated by the seeded bacterium, which resulted in enhanced mortality. These results support that larval microbiomes are strongly determined by the pollen provisions. Further, they underline the need for further investigation of the impact of detrimental bacterial acquired via pollens and potential buffering by a diverse pollen provision microbiome in solitary bees.
Solitary bees build their nests by modifying the interior of natural cavities, and they provision them with food by importing collected pollen. As a result, the microbiota of the solitary bee nests may be highly dependent on introduced materials. In order to investigate how the collected pollen is associated with the nest microbiota, we used metabarcoding of the ITS2 rDNA and the 16S rDNA to simultaneously characterize the pollen composition and the bacterial communities of 100 solitary bee nest chambers belonging to seven megachilid species. We found a weak correlation between bacterial and pollen alpha diversity and significant associations between the composition of pollen and that of the nest microbiota, contributing to the understanding of the link between foraging and bacteria acquisition for solitary bees. Since solitary bees cannot establish bacterial transmission routes through eusociality, this link could be essential for obtaining bacterial symbionts for this group of valuable pollinators.