{"bekendtgoerelseNoegle":{"noticeId":{"value":"458a364b-06a5-4d40-8d37-3f8f08ebc533"},"noticeVersion":{"value":"01"},"noticePublicationNumber":{"value":"00254240-2026"}},"htmlDA":"\n\n \n 1 Køber1.1 KøberOfficielt navn: Aalborg Universitet\n \n \n 2 Procedure2.1 ProcedureTitel: Microbial single cell genomics analyses\n Beskrivelse: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC 4.
Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n Identifikator for proceduren: 4c391ebc-b4b8-456b-9a14-7297b705e275\n Intern ID: 5860a0cb-6a24-4aff-a454-6d4e9ebb17b1\n Udbudsprocedure: Udbud med forhandling uden forudgående offentliggørelse\n 2.1.1 FormålKontraktens hovedformål: Tjenesteydelser\n Primær klassifikation (cpv): 73000000 Forsknings- og udviklingsvirksomhed og hermed beslægtet konsulentvirksomhed\n Supplerende klassifikation (cpv): 73111000 Tjenester ydet af forskningslaboratorier\n \n 2.1.2 UdførelsesstedPostadresse: 60 Bigalow Drive East Boothbay \n \n \n \n \n 2.1.4 Generelle oplysninger\n \n \n \n \n 5 Delkontrakt5.1 Delkontrakt: LOT-0000Titel: Microbial single cell genomics analyses\n Beskrivelse: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC 4.
Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n Intern ID: 21922a7d-b118-41c7-9160-ae48772bf4c8\n 5.1.1 FormålKontraktens hovedformål: Tjenesteydelser\n Primær klassifikation (cpv): 73000000 Forsknings- og udviklingsvirksomhed og hermed beslægtet konsulentvirksomhed\n Supplerende klassifikation (cpv): 73111000 Tjenester ydet af forskningslaboratorier\n \n 5.1.2 UdførelsesstedPostadresse: 60 Bigalow Drive East Boothbay \n \n \n \n \n \n 5.1.6 Generelle oplysningerIndkøbsprojekt, der ikke finansieres med EU-midler\n Udbuddet er omfattet af aftalen om offentlige udbud (GPA): ja\n \n 5.1.15 Teknikker\n Oplysninger om det dynamiske indkøbssystem:Intet dynamisk indkøbssystem\n \n \n 5.1.16 Yderligere oplysninger, mægling og gennemgangOrganisation med ansvar for klager: Klagenævnet for Udbud\n Organisation, der leverer supplerende oplysninger om udbudsproceduren: Aalborg Universitet\n Organisation, der leverer yderligere oplysninger om klageprocedurerne: Konkurrence- og Forbrugerstyrelsen\n Organisation, hvis budget anvendes til at betale for kontrakten: Aalborg Universitet\n \n \n \n 6 ResultaterDirekte tildeling:Begrundelse for direkte tildeling: Kontrakten kan kun tildeles af en bestemt økonomisk aktør på grund af manglende konkurrence af tekniske årsager\n Anden begrundelse: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC
4. Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n \n 6.1 Resultat delkontrakt-ID: LOT-00006.1.2 Oplysninger om vinderneVinder:Officielt navn: Bigalow Laboratory for Ocean Sciences\n \n Tilbud – Identifikator: Bigelow Laboratory for Ocean Sciences\n ID for delkontrakt eller gruppe af delkontrakter: LOT-0000\n Værdien af tilbuddet: 5.000.000 Dansk krone\n Tilbuddet blev rangordnet: nej\n Kontraktoplysninger:Identifikator for kontrakten: Microbial single cell genomics analyses\n \n \n \n \n \n 8 Organisationer8.1 ORG-0001Officielt navn: Aalborg Universitet\n Registreringsnummer: 29102384\n Postadresse: Fredrik Bajers Vej 7K \n \n \n Landsdel (NUTS): Nordjylland (DK050)\n \n Enhed: Alexander Herskind Rasmussen\n \n \n Denne organisations roller:\n Organisation, der leverer supplerende oplysninger om udbudsproceduren\n Organisation, hvis budget anvendes til at betale for kontrakten\n \n \n 8.1 ORG-0002Officielt navn: Klagenævnet for Udbud\n Registreringsnummer: 37795526\n \n \n \n Landsdel (NUTS): Vestjylland (DK041)\n \n Enhed: Klagenævnet for Udbud\n E-mail: klfu@naevneneshus.dk\n \n Internetadresse: https://naevneneshus.dk/start-din-klage/klagenaevnet-for-udbud/\n Denne organisations roller:Organisation med ansvar for klager\n \n \n 8.1 ORG-0003Officielt navn: Konkurrence- og Forbrugerstyrelsen\n Registreringsnummer: 10294819\n Postadresse: Carl Jacobsens Vej 35 \n \n \n Landsdel (NUTS): Byen København (DK011)\n \n Enhed: Konkurrence- og Forbrugerstyrelsen\n \n \n Internetadresse: https://www.kfst.dk\n Denne organisations roller:Organisation, der leverer yderligere oplysninger om klageprocedurerne\n \n \n 8.1 ORG-0004Officielt navn: Bigalow Laboratory for Ocean Sciences\n Postadresse: 60 Bigalow Drive East Boothbay, Maine \n \n \n \n Denne organisations roller:\n Vinder af disse delkontrakter: LOT-0000\n \n \n 8.1 ORG-0005Officielt navn: Mercell Holding ASA\n Registreringsnummer: 980921565\n Postadresse: Askekroken 11 \n \n \n Landsdel (NUTS): Oslo (NO081)\n \n \n E-mail: publication@mercell.com\n \n \n Internetadresse: http://mercell.com/\n Denne organisations roller:\n \n \n \n Oplysninger om bekendtgørelsenBekendtgørelsens ID: 458a364b-06a5-4d40-8d37-3f8f08ebc533 - 01\n Formulartype: Forudgående underretning om direkte tildeling\n Bekendtgørelsestype: Bekendtgørelse med henblik på frivillig forudgående gennemsigtighed\n Afsendelsesdato for bekendtgørelsen: 13-04-2026 12:15 +00:00\n Dato for afsendelse af bekendtgørelsen (eSender): 13-04-2026 12:21 +00:00\n Bekendtgørelsens officielle sprog: dansk \n Bekendtgørelsesnummer: 00254240-2026\n \n Offentliggørelsesdato: 14-04-2026\n \n \n","htmlEN":"\n\n \n 1 Buyer1.1 BuyerOfficial name: Aalborg Universitet\n \n \n 2 Procedure2.1 ProcedureTitle: Microbial single cell genomics analyses\n Description: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC 4.
Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n Procedure identifier: 4c391ebc-b4b8-456b-9a14-7297b705e275\n Internal identifier: 5860a0cb-6a24-4aff-a454-6d4e9ebb17b1\n Type of procedure: Negotiated without prior call for competition\n 2.1.1 PurposeMain nature of the contract: Services\n Main classification (cpv): 73000000 Research and development services and related consultancy services\n Additional classification (cpv): 73111000 Research laboratory services\n \n 2.1.2 Place of performancePostal address: 60 Bigalow Drive East Boothbay \n \n \n \n \n 2.1.4 General information\n \n \n \n \n 5 Lot5.1 Lot: LOT-0000Title: Microbial single cell genomics analyses\n Description: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC 4.
Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n Internal identifier: 21922a7d-b118-41c7-9160-ae48772bf4c8\n 5.1.1 PurposeMain nature of the contract: Services\n Main classification (cpv): 73000000 Research and development services and related consultancy services\n Additional classification (cpv): 73111000 Research laboratory services\n \n 5.1.2 Place of performancePostal address: 60 Bigalow Drive East Boothbay \n \n \n \n \n \n 5.1.6 General informationProcurement Project not financed with EU Funds.\n The procurement is covered by the Government Procurement Agreement (GPA): yes\n \n 5.1.15 Techniques\n Information about the dynamic purchasing system:No dynamic purchase system\n \n \n 5.1.16 Further information, mediation and reviewReview organisation: Klagenævnet for Udbud\n Organisation providing additional information about the procurement procedure: Aalborg Universitet\n Organisation providing more information on the review procedures: Konkurrence- og Forbrugerstyrelsen\n Organisation whose budget is used to pay for the contract: Aalborg Universitet\n \n \n \n 6 ResultsDirect award:Justification for direct award: The contract can be provided only by a particular economic operator because of an absence of competition for technical reasons\n Other justification: The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory\n for Ocean Sciences is the only facility in the world capable of performing large-scale,\n integrated single-cell and single-viral-particle genome and phenome analyses on diverse\n environmental microbiomes. The processing of exceedingly small DNA quantities makes\n single cell genomics highly susceptible to DNA contamination and amplification biases.\n SCGC has developed techniques to monitor and minimize methodological artifacts at\n every step of its workflow. Cell sorting and DNA amplification are performed in a\n cleanroom, and all consumables are decontaminated using in-house methods. Control\n wells on each microplate are used to detect potential DNA contamination. To prevent\n index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes.\n Genome de novo assemblies are evaluated by diverse, in-house and external QC tools.\n The entire workflow is assessed for contamination and assembly errors using microbial\n benchmark cultures with diverse genome complexity and G+C content, indicating no non-target\n and undefined bases and average frequencies of mis-assemblies, indels, and mismatches\n at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of\n fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs)\n (SCGC services S-201, S-202, and S-203). As part of these services, cells or other\n particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates.\n Cells/particles may be selected based on particle autofluorescence or fluorescent\n probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201\n service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared\n to the earlier versions of multiple displacement amplification technique (MDA), WGA-X\n improves average genome recovery from individual cells and viral particles, with most\n notable enhancements observed in SAGs with high G+C content. Service S-202 uses a\n genomic DNA amplification technique WGA-Y, which offers a further improvement in the\n average genome recovery from single cells. Service S-203 complements S-201 and S-202\n by measuring oxygen respiration rates of individual microbial cells. Deliverables\n of FACS-based SAG generation services include: a. 384-well microplates containing\n WGA products of individual particles b. Phenotype measurements of sorted particles\n c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212,\n S-213, S-221, S-222, and S-223). These services include Illumina library preparation\n from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional\n and taxonomic annotation, and genome quality control. Deliverables include: a. raw\n sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic\n assignments e. general genome properties, such as GC content and coding density f.\n files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle\n reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311,\n S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into\n into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified\n by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs,\n serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then\n used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed,\n de novo assembled, and the obtained assemblies are annotated and quality controlled.\n Deliverables include:
h. barcoded SPC SAGs
i. multiplexed Illumina libraries\n
j. raw sequence reads
k. de novo SAG assemblies
l. SAG functional annotation\n
m. SAG taxonomic assignments
n. general genome properties, such as GC content\n and coding density
o. files to assist manual QC
4. Complementary services:\n a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c.\n Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized\n services (S-020)\n \n 6.1 Result lot identifier: LOT-00006.1.2 Information about winnersWinner:Official name: Bigalow Laboratory for Ocean Sciences\n \n Tender identifier: Bigelow Laboratory for Ocean Sciences\n Identifier of lot or group of lots: LOT-0000\n Value of the tender: 5.000.000 Danish krone\n The tender was ranked: no\n Contract information:Identifier of the contract: Microbial single cell genomics analyses\n \n \n \n \n \n 8 Organisations8.1 ORG-0001Official name: Aalborg Universitet\n Registration number: 29102384\n Postal address: Fredrik Bajers Vej 7K \n \n \n Country subdivision (NUTS): Nordjylland (DK050)\n \n Contact point: Alexander Herskind Rasmussen\n \n \n Roles of this organisation:\n Organisation providing additional information about the procurement procedure\n Organisation whose budget is used to pay for the contract\n \n \n 8.1 ORG-0002Official name: Klagenævnet for Udbud\n Registration number: 37795526\n Postal address: Toldboden 2 \n \n \n Country subdivision (NUTS): Vestjylland (DK041)\n \n Contact point: Klagenævnet for Udbud\n Email: klfu@naevneneshus.dk\n \n Internet address: https://naevneneshus.dk/start-din-klage/klagenaevnet-for-udbud/\n Roles of this organisation:\n \n \n 8.1 ORG-0003Official name: Konkurrence- og Forbrugerstyrelsen\n Registration number: 10294819\n Postal address: Carl Jacobsens Vej 35 \n \n \n Country subdivision (NUTS): Byen København (DK011)\n \n Contact point: Konkurrence- og Forbrugerstyrelsen\n \n \n Internet address: https://www.kfst.dk\n Roles of this organisation:Organisation providing more information on the review procedures\n \n \n 8.1 ORG-0004Official name: Bigalow Laboratory for Ocean Sciences\n Postal address: 60 Bigalow Drive East Boothbay, Maine \n \n \n \n Roles of this organisation:\n Winner of these lots: LOT-0000\n \n \n 8.1 ORG-0005Official name: Mercell Holding ASA\n Registration number: 980921565\n Postal address: Askekroken 11 \n \n \n Country subdivision (NUTS): Oslo (NO081)\n \n \n Email: publication@mercell.com\n \n \n Internet address: http://mercell.com/\n Roles of this organisation:\n \n \n \n Notice informationNotice identifier/version: 458a364b-06a5-4d40-8d37-3f8f08ebc533 - 01\n Form type: Direct award preannouncement\n Notice type: Voluntary ex-ante transparency notice\n Notice dispatch date: 13-04-2026 12:15 +00:00\n Notice dispatch date (eSender): 13-04-2026 12:21 +00:00\n Languages in which this notice is officially available: Danish \n Notice publication number: 00254240-2026\n OJ S issue number: 72/2026\n Publication date: 14-04-2026\n \n \n","opsummeringDA":{"card":{"titel":"Microbial single cell genomics analyses","ordregiver":"Aalborg Universitet","ordregiverId":"ORG-29102384","ordregiverIdDatavasket":"29102384","publiceringsdato":"2026-04-14+02:00","cpvKode":"73000000","cpvTitel":"Forsknings- og udviklingsvirksomhed og hermed beslægtet konsulentvirksomhed","formulartype":"Forudgående underretning om direkte tildeling","formulartypeKode":"dir-awa-pre","tidsfrister":[],"alleOrdregivere":["Aalborg Universitet"],"beskrivelse":"The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory for Ocean Sciences is the only facility in the world capable of performing large-scale, integrated single-cell and single-viral-particle genome and phenome analyses on diverse environmental microbiomes. The processing of exceedingly small DNA quantities makes single cell genomics highly susceptible to DNA contamination and amplification biases. SCGC has developed techniques to monitor and minimize methodological artifacts at every step of its workflow. Cell sorting and DNA amplification are performed in a cleanroom, and all consumables are decontaminated using in-house methods. Control wells on each microplate are used to detect potential DNA contamination. To prevent index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes. Genome de novo assemblies are evaluated by diverse, in-house and external QC tools. The entire workflow is assessed for contamination and assembly errors using microbial benchmark cultures with diverse genome complexity and G+C content, indicating no non-target and undefined bases and average frequencies of mis-assemblies, indels, and mismatches at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs) (SCGC services S-201, S-202, and S-203). As part of these services, cells or other particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates. Cells/particles may be selected based on particle autofluorescence or fluorescent probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201 service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared to the earlier versions of multiple displacement amplification technique (MDA), WGA-X improves average genome recovery from individual cells and viral particles, with most notable enhancements observed in SAGs with high G+C content. Service S-202 uses a genomic DNA amplification technique WGA-Y, which offers a further improvement in the average genome recovery from single cells. Service S-203 complements S-201 and S-202 by measuring oxygen respiration rates of individual microbial cells. Deliverables of FACS-based SAG generation services include: a. 384-well microplates containing WGA products of individual particles b. Phenotype measurements of sorted particles c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212, S-213, S-221, S-222, and S-223). These services include Illumina library preparation from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional and taxonomic annotation, and genome quality control. Deliverables include: a. raw sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic assignments e. general genome properties, such as GC content and coding density f. files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311, S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs, serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed, de novo assembled, and the obtained assemblies are annotated and quality controlled. Deliverables include: \nh. barcoded SPC SAGs\ni. multiplexed Illumina libraries \nj. raw sequence reads \nk. de novo SAG assemblies \nl. SAG functional annotation \nm. SAG taxonomic assignments \nn. general genome properties, such as GC content and coding density \no. files to assist manual QC 4. \nComplementary services: a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c. Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized services (S-020)","bkSubTypeKode":"25","bkSubType":"Bekendtgørelse med henblik på frivillig forudgående gennemsigtighed – det generelle direktiv","erAendring":false},"indholdsType":"HENTET_FRA_TED","sekundaereOrdregivere":[],"udforelsesstedNutsCode":[],"udforelsesstedSubLand":[],"udforelsesstedLand":["Forenede Stater"],"udforelsesstedBy":["Maine"],"tilbudsfrister":[],"intressentfrister":[],"deltagelsefrister":[],"svarfrister":[],"antalParts":0,"antalLots":1,"udbudsDokumenter":[]},"opsummeringEN":{"card":{"titel":"Microbial single cell genomics analyses","ordregiver":"Aalborg Universitet","ordregiverId":"ORG-29102384","ordregiverIdDatavasket":"29102384","publiceringsdato":"2026-04-14+02:00","cpvKode":"73000000","cpvTitel":"Research and development services and related consultancy services","formulartype":"Direct award preannouncement","formulartypeKode":"dir-awa-pre","tidsfrister":[],"alleOrdregivere":["Aalborg Universitet"],"beskrivelse":"The Singe Cell Genomics Center (SCGC; https://scgc.bigelow.org) at the Bigelow Laboratory for Ocean Sciences is the only facility in the world capable of performing large-scale, integrated single-cell and single-viral-particle genome and phenome analyses on diverse environmental microbiomes. The processing of exceedingly small DNA quantities makes single cell genomics highly susceptible to DNA contamination and amplification biases. SCGC has developed techniques to monitor and minimize methodological artifacts at every step of its workflow. Cell sorting and DNA amplification are performed in a cleanroom, and all consumables are decontaminated using in-house methods. Control wells on each microplate are used to detect potential DNA contamination. To prevent index switching during DNA sequencing, multiplexed libraries contain dual 10 bp barcodes. Genome de novo assemblies are evaluated by diverse, in-house and external QC tools. The entire workflow is assessed for contamination and assembly errors using microbial benchmark cultures with diverse genome complexity and G+C content, indicating no non-target and undefined bases and average frequencies of mis-assemblies, indels, and mismatches at <5 per 100 kbp. The following SCGC services will be performed: 1. Generation of fluorescence-activated cell sorting (FACS) - based single amplified genomes (SAGs) (SCGC services S-201, S-202, and S-203). As part of these services, cells or other particles are separated by FACS, lysed, and their DNA is amplified in 384-well microplates. Cells/particles may be selected based on particle autofluorescence or fluorescent probes. Cells/particles are lysed and their DNA is denatured. Subsequently, the S-201 service uses WGA-X for genomic DNA amplification, a method developed by SCGC. Compared to the earlier versions of multiple displacement amplification technique (MDA), WGA-X improves average genome recovery from individual cells and viral particles, with most notable enhancements observed in SAGs with high G+C content. Service S-202 uses a genomic DNA amplification technique WGA-Y, which offers a further improvement in the average genome recovery from single cells. Service S-203 complements S-201 and S-202 by measuring oxygen respiration rates of individual microbial cells. Deliverables of FACS-based SAG generation services include: a. 384-well microplates containing WGA products of individual particles b. Phenotype measurements of sorted particles c. WGA kinetics in each well 2. Sequencing of FACS - based SAGs (services S-211, S-212, S-213, S-221, S-222, and S-223). These services include Illumina library preparation from SAG gDNA, shotgun sequencing, read demultiplexing, de novo assembly, functional and taxonomic annotation, and genome quality control. Deliverables include: a. raw sequence reads b. de novo SAG assemblies c. SAG functional annotation d. SAG taxonomic assignments e. general genome properties, such as GC content and coding density f. files to assist manual QC: outputs of tetramer PCA, BLASTn and checkM g. single particle reports. 3. Semi-permeable capsule (SPC) SAG generation and sequencing (services S-311, S-312, S-321, S-322, and S-323). Cells and other particles are compartmentalized into into SPCs using microfluidic platforms, then lysed, and their genomic DNA is amplified by WGA-Y to produce SPC SAGs. Environmental SPC SAGs are mixed with E. coli SPC SAGs, serving as internal standards. The SPC SAG DNA is combinatorially barcoded and then used in Illumina library preparation. After shotgun sequencing, reads are demultiplexed, de novo assembled, and the obtained assemblies are annotated and quality controlled. Deliverables include: \nh. barcoded SPC SAGs\ni. multiplexed Illumina libraries \nj. raw sequence reads \nk. de novo SAG assemblies \nl. SAG functional annotation \nm. SAG taxonomic assignments \nn. general genome properties, such as GC content and coding density \no. files to assist manual QC 4. \nComplementary services: a. Handling of biohazard level 2 samples (S-004) b. FACS SAG re-arraying (S-005) c. Provision of cell cryoprotectant glyTE (S-009) d. Consultation (S-011) e. Customized services (S-020)","bkSubTypeKode":"25","bkSubType":"Voluntary ex-ante transparency notice – general directive","erAendring":false},"indholdsType":"HENTET_FRA_TED","sekundaereOrdregivere":[],"udforelsesstedNutsCode":[],"udforelsesstedSubLand":[],"udforelsesstedLand":["United States"],"udforelsesstedBy":["Maine"],"tilbudsfrister":[],"intressentfrister":[],"deltagelsefrister":[],"svarfrister":[],"antalParts":0,"antalLots":1,"udbudsDokumenter":[]}}