title: High Efficiency Hydrodynamic DNA Fragmentation in a Bubbling System.
abstract: DNA fragmentation down to a precise fragment size is important for biomedical applications, disease determination, gene therapy and shotgun sequencing. In this work, a cheap, easy to operate and high efficiency DNA fragmentation method is demonstrated based on hydrodynamic shearing in a bubbling system. We expect that hydrodynamic forces generated during the bubbling process shear the DNA molecules, extending and breaking them at the points where shearing forces are larger than the strength of the phosphate backbone. Factors of applied pressure, bubbling time and temperature have been investigated. Genomic DNA could be fragmented down to controllable 1-10 Kbp fragment lengths with a yield of 75.30-91.60%. We demonstrate that the ends of the genomic DNAs generated from hydrodynamic shearing can be ligated by T4 ligase and the fragmented DNAs can be used as templates for polymerase chain reaction. Therefore, in the bubbling system, DNAs could be hydrodynamically sheared to achieve smaller pieces in dsDNAs available for further processes. It could potentially serve as a DNA sample pretreatment technique in the future.
authors.affiliation: Institute of Electronic Paper Displays, South China Academy for Advanced Optoelectronics, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.
authors.forename: Lanhui
authors.initials: L
authors.lastname: Li
authors.affiliation: Institute of Electronic Paper Displays, South China Academy for Advanced Optoelectronics, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.
authors.forename: Mingliang
authors.initials: M
authors.lastname: Jin
authors.affiliation: South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China.
authors.forename: Chenglong
authors.initials: C
authors.lastname: Sun
authors.affiliation: South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China.
authors.forename: Xiaoxue
authors.initials: X
authors.lastname: Wang
authors.affiliation: Institute of Electronic Paper Displays, South China Academy for Advanced Optoelectronics, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.
authors.forename: Shuting
authors.initials: S
authors.lastname: Xie
authors.affiliation: Institute of Electronic Paper Displays, South China Academy for Advanced Optoelectronics, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.
authors.forename: Guofu
authors.initials: G
authors.lastname: Zhou
authors.affiliation: Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|BIOS/Lab-on-a-Chip Group, MESA+Institute for Nanotechnology, University of Twente, Postbox 217, 7500 AE Enschede, the Netherlands.
authors.forename: Albert
authors.initials: A
authors.lastname: van den Berg
authors.affiliation: Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|BIOS/Lab-on-a-Chip Group, MESA+Institute for Nanotechnology, University of Twente, Postbox 217, 7500 AE Enschede, the Netherlands.
authors.forename: Jan C T
authors.initials: JC
authors.lastname: Eijkel
authors.affiliation: Institute of Electronic Paper Displays, South China Academy for Advanced Optoelectronics, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.|Joint International Research Laboratory of Optical Information of the Chinese Ministry of Education, South China Normal University, Guangzhou Higher Education Mega Center, Guangzhou 510006, China.
authors.forename: Lingling
authors.initials: L
authors.lastname: Shui
mesh_terms: D053938:DNA Fragmentation; D057446:Hydrodynamics; D008853:Microscopy; D016133:Polymerase Chain Reaction