Application of immobilized enzymes for nanopore library construction
The present disclosure relates, according to some embodiments, to methods for preparing a library for sequencing. For example, a method may comprise (a) in a coupled reaction, (i) contacting a population of nucleic acid fragments with a tailing enzyme to produce tailed fragments, and (ii) ligating to the tailed fragments a sequencing adapter with a ligase to produce adapter-tagged fragments; and/or separating adapter-tagged fragments from the tailing enzyme and the ligase to produce separated adapter-tagged fragments and, optionally, separated tailing enzyme and/or separated ligase. In some embodiments, a tailing enzyme and/or a ligase used in library preparation may be immobilized enzymes.
1. A method of preparing a library for sequencing, comprising:
(a) in a coupled reaction, (i) contacting a population of nucleic acid fragments with a tailing enzyme to produce tailed fragments, and (ii) ligating to the tailed fragments a sequencing adapter with a ligase to produce adapter-tagged fragments; and
(b) separating adapter-tagged fragments from the tailing enzyme and the ligase to produce separated adapter-tagged fragments and, optionally, separated tailing enzyme and/or separated ligase, wherein the tailing enzyme and the ligase are co-immobilized on a single support.
2. A method according to claim 1 , wherein the population of nucleic acid fragments comprise ribonucleic acid fragments.
3. A method according to claim 1 , wherein the tailing enzyme is immobilized on a magnetic bead.
4. A method according to claim 3 , wherein the separating the adapter tagged fragments further comprises subjecting the coupled reaction to a magnetic field.
5. A method according to claim 1 , wherein the ligase is immobilized on a magnetic bead.
6. A method according to claim 5 , wherein the separating the adapter tagged fragments further comprises subjecting the coupled reaction to a magnetic field.
7. A method according to claim 1 , wherein the population of nucleic acid fragments comprise deoxyribonucleic acid fragments.
8. A method according to claim 1 , wherein the population of nucleic acid fragments has less than 100 ng of nucleic acids.
9. A method according to claim 1 , wherein the population of nucleic acid fragments has less than 10 ng of nucleic acids.
10. A method according to claim 1 , further comprising:
(c) in a second coupled reaction, (i) contacting a second population of nucleic acid fragments with the separated tailing enzyme to produce additional tailed fragments, and (ii) ligating to the additional tailed fragments a second sequencing adapter with the separated ligase to produce additional adapter-tagged fragments, and
(d) separating the additional adapter-tagged fragments from the separated tailing enzyme and the separated ligase to produce separated additional adapter-tagged fragments, separated tailing enzyme, and separated ligase.
11. A method according to claim 10 , further comprising:
(e) translocating the separated adapter-tagged fragments through one or more transmembrane pores;
(f) detecting electrical changes as the one or more separated adapter-tagged fragments are translocated through the one or more transmembrane pores in an insulating membrane to produce an electrical signal; and
(g) analyzing the electrical signal to generate a sequence read.
12. A method according to claim 11 , wherein the one or more transmembrane pores retain about 90% of their initial activity after two hours.
13. A method according to claim 11 , wherein the one or more transmembrane pores retain about 50% of their initial activity after 8 hours.
14. A method according to claim 11 , wherein the one or more transmembrane pores produce at least 900 sequence reads per transmembrane pore.
15. A method according to claim 1 , wherein the sequencing adapter is a single stranded adapter comprising:
a leader sequence; and
a first sequence and a second sequence, wherein the first and second sequences are complementary to each other and define a hairpin,
wherein the leader sequence is configured to thread into the one or more transmembrane pores.