Patent · US10773232B2 · B2 · US
De novo synthesized gene libraries
- (11) Publication number
- US10773232B2
- (21) Application number
- 16/535,779
- (22) Filing date
- 2019-08-08
- (30) Priority date
- 2013-08-05
- (43) Publication date
- 2020-09-15
- (45) Date of grant
- 2020-09-15
- (51) IPC
- B01J 19/00; C12N 15/10; C12N 15/11; C12N 15/66; C12N 15/74; C40B 50/18; C40B 50/00; C40B 50/14
- (52) CPC
- B01J Chemical or physical processes, e.g. catalysis or colloid chemistry; their relevant apparatus: 19/0046, 2219/00313, 2219/00317, 2219/00378, 2219/00497, 2219/00585, 2219/00587, 2219/0059, 2219/00596, 2219/00605, 2219/00612, 2219/00619, 2219/00623, 2219/00637, 2219/00709, 2219/00722
- C12N Microorganisms or enzymes; compositions thereof; propagating, preserving, or maintaining microorganisms; mutation or genetic engineering; culture media: 15/09, 15/1093, 15/1096, 15/635, 15/66, 15/74
- C12Q Measuring or testing processes involving enzymes, nucleic acids or microorganisms; compositions or test papers therefor; processes of preparing such compositions; condition-responsive control in microbiological or enzymological processes: 1/6806
- C40B Combinatorial chemistry; libraries, e.g. chemical libraries: 40/06, 40/08, 50/00, 50/14, 50/18
- (73) Assignee
- Twist Bioscience Corp
- (72) Inventors
- William Banyai; Bill James Peck; Andres Fernandez; Siyuan Chen; Pierre Indermuhle
- (54) Title
- De novo synthesized gene libraries
- (57) Abstract
De novo synthesized large libraries of nucleic acids are provided herein with low error rates. Further, devices for the manufacturing of high-quality building blocks, such as oligonucleotides, are described herein. Longer nucleic acids can be synthesized in parallel using microfluidic assemblies. Further, methods herein allow for the fast construction of large libraries of long, high-quality genes. Devices for the manufacturing of large libraries of long and high-quality nucleic acids are further described herein.
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Claims (23)
- A method for computer-assisted polynucleotide synthesis, comprising: receiving instructions in a computer readable non-transient medium for synthesis of DNA sequences each having a full length sequence of at least 100 bases in length; processing the instructions in a computer and transmitting synthesis instructions to a material deposition device, wherein the instructions provide for synthesis of a plurality of polynucleotides that encode for the DNA sequences; and releasing synthesis reagents from the material deposition device to synthesize the plurality of polynucleotides, wherein 67% or more of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification, and wherein the plurality of polynucleotides comprise a plurality of different nucleotide bases.
- The method of claim 1, wherein at least 70% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.
- The method of claim 1, wherein at least 81% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.
- The method of claim 1, wherein at least 89% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.
- The method of claim 1, further comprising performance of size selection to the plurality of polynucleotides, wherein the size selection is based on the DNA sequences received in the instructions in the computer readable non-transient medium.
- The method of claim 1, wherein the DNA sequences are cDNA sequences.
- The method of claim 1, wherein the plurality of polynucleotides comprises at least 5000 polynucleotides.
- The method of claim 1, wherein the plurality of polynucleotides comprises at least 10,000 polynucleotides.
- The method of claim 1, wherein the plurality of polynucleotides collectively encode for at least 500 genes.
- The method of claim 1, wherein the DNA sequences have a length of 100 to 300 bases.
- The method of claim 1, further comprising purification of the plurality of polynucleotides that are synthesized.
- A method for polynucleotide synthesis, comprising: receiving DNA sequences each having a full length sequence of at least 100 bases in length; and synthesizing a plurality of polynucleotides encoding for the DNA sequences, wherein 67% or more of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification, and wherein the plurality of polynucleotides comprise a plurality of different nucleotide bases.
- The method of claim 12, wherein the DNA sequences are cDNA sequences.
- The method of claim 12, wherein the plurality of polynucleotides comprises at least 5,000 polynucleotides.
- The method of claim 12, wherein the plurality of polynucleotides comprises at least 100,000 polynucleotides.
- The method of claim 12, wherein the plurality of polynucleotides collectively encode for at least 500 genes.
- The method of claim 12, wherein the plurality of polynucleotides collectively encode for at least 10,000 genes.
- The method of claim 12, wherein the DNA sequences have a length of 100 to 300 bases.
- The method of claim 12, wherein at least 70% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.
- The method of claim 12, wherein at least 81% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.
- The method of claim 12, wherein at least 89% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.
- The method of claim 12, further comprising performance of size selection to the plurality of polynucleotides, wherein the size selection is based on the DNA sequences received.
- The method of claim 12, further comprising purification of the plurality of polynucleotides that are synthesized.
Description
Highly efficient chemical gene synthesis with high fidelity and low cost has a central role in biotechnology and medicine, and in basic biomedical research.
De novo gene synthesis is a powerful tool for basic biological research and biotechnology applications. While various methods are known for the synthesis of relatively short fragments in a small scale, these techniques suffer from scalability, automation, speed, accuracy, and cost. There is a need for devices for simple, reproducible, scalable, less error-prone and cost-effective methods that guarantee successful synthesis of desired genes and are amenable to automation.
As noted above, there exists a pressing need for methods, devices and systems that can quickly synthesize large gene libraries or relatively longer oligonucleotide fragments efficiently with less error. Similarly, there is also a need for methods that can partition and mix liquid reagents in a microfluidic scale for large numbers of individually addressable reactions in parallel. The present invention addresses these needs and provides related advantages as well.
In one aspect, the present invention provides a gene library as described herein. The gene library comprises a collection of genes. In some embodiments, the collection comprises at least 100 different preselected synthetic genes that can be of at least 0.5 kb length with an error rate of less than 1 in 3000 bp compared to predetermined sequences comprising the genes. In another aspect, the present invention also provides a gene library that comprises a collection of genes.
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Record as JSON
{
"publication_number": "US10773232B2",
"country": "US",
"kind": "B2",
"title": "De novo synthesized gene libraries",
"abstract": "De novo synthesized large libraries of nucleic acids are provided herein with low error rates. Further, devices for the manufacturing of high-quality building blocks, such as oligonucleotides, are described herein. Longer nucleic acids can be synthesized in parallel using microfluidic assemblies. Further, methods herein allow for the fast construction of large libraries of long, high-quality genes. Devices for the manufacturing of large libraries of long and high-quality nucleic acids are further described herein.",
"claims": [
"1. A method for computer-assisted polynucleotide synthesis, comprising: receiving instructions in a computer readable non-transient medium for synthesis of DNA sequences each having a full length sequence of at least 100 bases in length; processing the instructions in a computer and transmitting synthesis instructions to a material deposition device, wherein the instructions provide for synthesis of a plurality of polynucleotides that encode for the DNA sequences; and releasing synthesis reagents from the material deposition device to synthesize the plurality of polynucleotides, wherein 67% or more of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification, and wherein the plurality of polynucleotides comprise a plurality of different nucleotide bases.",
"2. The method of claim 1, wherein at least 70% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.",
"3. The method of claim 1, wherein at least 81% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.",
"4. The method of claim 1, wherein at least 89% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences compared to the DNA sequences received in the instructions in the computer readable non-transient medium without purification.",
"5. The method of claim 1, further comprising performance of size selection to the plurality of polynucleotides, wherein the size selection is based on the DNA sequences received in the instructions in the computer readable non-transient medium.",
"6. The method of claim 1, wherein the DNA sequences are cDNA sequences.",
"7. The method of claim 1, wherein the plurality of polynucleotides comprises at least 5000 polynucleotides.",
"8. The method of claim 1, wherein the plurality of polynucleotides comprises at least 10,000 polynucleotides.",
"9. The method of claim 1, wherein the plurality of polynucleotides collectively encode for at least 500 genes.",
"10. The method of claim 1, wherein the DNA sequences have a length of 100 to 300 bases.",
"11. The method of claim 1, further comprising purification of the plurality of polynucleotides that are synthesized.",
"12. A method for polynucleotide synthesis, comprising: receiving DNA sequences each having a full length sequence of at least 100 bases in length; and synthesizing a plurality of polynucleotides encoding for the DNA sequences, wherein 67% or more of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification, and wherein the plurality of polynucleotides comprise a plurality of different nucleotide bases.",
"13. The method of claim 12, wherein the DNA sequences are cDNA sequences.",
"14. The method of claim 12, wherein the plurality of polynucleotides comprises at least 5,000 polynucleotides.",
"15. The method of claim 12, wherein the plurality of polynucleotides comprises at least 100,000 polynucleotides.",
"16. The method of claim 12, wherein the plurality of polynucleotides collectively encode for at least 500 genes.",
"17. The method of claim 12, wherein the plurality of polynucleotides collectively encode for at least 10,000 genes.",
"18. The method of claim 12, wherein the DNA sequences have a length of 100 to 300 bases.",
"19. The method of claim 12, wherein at least 70% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.",
"20. The method of claim 12, wherein at least 81% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.",
"21. The method of claim 12, wherein at least 89% of the plurality of polynucleotides that are synthesized encode for the full length sequence of the DNA sequences without purification.",
"22. The method of claim 12, further comprising performance of size selection to the plurality of polynucleotides, wherein the size selection is based on the DNA sequences received.",
"23. The method of claim 12, further comprising purification of the plurality of polynucleotides that are synthesized."
],
"description_excerpt": "Highly efficient chemical gene synthesis with high fidelity and low cost has a central role in biotechnology and medicine, and in basic biomedical research.\n\nDe novo gene synthesis is a powerful tool for basic biological research and biotechnology applications. While various methods are known for the synthesis of relatively short fragments in a small scale, these techniques suffer from scalability, automation, speed, accuracy, and cost. There is a need for devices for simple, reproducible, scalable, less error-prone and cost-effective methods that guarantee successful synthesis of desired genes and are amenable to automation.\n\nAs noted above, there exists a pressing need for methods, devices and systems that can quickly synthesize large gene libraries or relatively longer oligonucleotide fragments efficiently with less error. Similarly, there is also a need for methods that can partition and mix liquid reagents in a microfluidic scale for large numbers of individually addressable reactions in parallel. The present invention addresses these needs and provides related advantages as well.\n\nIn one aspect, the present invention provides a gene library as described herein. The gene library comprises a collection of genes. In some embodiments, the collection comprises at least 100 different preselected synthetic genes that can be of at least 0.5 kb length with an error rate of less than 1 in 3000 bp compared to predetermined sequences comprising the genes. In another aspect, the present invention also provides a gene library that comprises a collection of genes.",
"cpc": [
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],
"assignees": [
"Twist Bioscience Corp"
],
"inventors": [
"William Banyai",
"Bill James Peck",
"Andres Fernandez",
"Siyuan Chen",
"Pierre Indermuhle"
],
"filing_date": "2019-08-08",
"publication_date": "2020-09-15",
"grant_date": "2020-09-15",
"priority_date": "2013-08-05",
"application_number": "US-201916535779-A",
"family_id": "52428204",
"cited_by_count": 39,
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Record 1,977 of 8,000 in Patents full text (MLC-0201). Request the full dataset.