Daniel Chambers Gibson

Author:

Daniel Gibson

ISBN #:

0312207778

Address:

205 Judy Cir, Lynn Haven, FL 32444

VIN:

1D7RB1CT2BS550830

Make:

RAM

Model:

RAM PICKUP 1500

Year:

2011

US Patent:

7723077, May 25, 2010

Filed:

Aug 11, 2006

Appl. No.:

11/502746

Inventors:

Lei Young - Rockville MD, US
Hamilton O. Smith - Reisterstown MD, US
Daniel Glenn Gibson - Crofton MD, US

Assignee:

Synthetic Genomics, Inc. - San Diego CA

International Classification:

C12P 19/34
C12N 9/00
C12N 15/00

US Classification:

435 911, 435183, 435440

Abstract:

The present invention relates, e. g. , to in vitro method, using isolated protein reagents, for joining two double stranded (ds) DNA molecules of interest, wherein the distal region of the first DNA molecule and the proximal region of the second DNA molecule share a region of sequence identity, comprising contacting the two DNA molecules in a reaction mixture with (a) a non-processive 5′ exonculease; (b) a single stranded DNA binding protein (SSB) which accelerates nucleic acid annealing; (c) a non strand-displacing DNA polymerase; and (d) a ligase, under conditions effective to join the two DNA molecules to form an intact double stranded DNA molecule, in which a single copy of the region of sequence identity is retained. The method allows the joining of a number of DNA fragments, in a predetermined order and orientation, without the use of restriction enzymes.

US Patent:

7776532, Aug 17, 2010

Filed:

Aug 11, 2006

Appl. No.:

11/502624

Inventors:

Daniel Glenn Gibson - Crofton MD, US
Hamilton O. Smith - Reisterstown MD, US

Assignee:

Synthetic Genomics, Inc. - San Diego CA

International Classification:

C12Q 1/68
C12P 19/34
C07H 21/02
C07H 21/04

US Classification:

435 6, 435 912, 536 231, 536 243

Abstract:

The present invention relates, e. g. , to an in vitro method, using isolated protein reagents, for joining two double-stranded (ds) DNA molecules of interest, wherein the distal region of the first DNA molecule and the proximal region of the second DNA molecule share a region of sequence identity, comprising (a) chewing back the DNA molecules with an enzyme having an exonuclease activity, to yield single-stranded overhanging portions of each DNA molecule which contain a sufficient length of the region of sequence identity to hybridize specifically to each other; (b) specifically annealing the single-stranded overhangs; and (c) repairing single-stranded gaps in the annealed DNA molecules and sealing the nicks thus formed (ligating the nicked DNA molecules). The region of sequence identity generally comprises at least 20 non-palindromic nucleotides (nt), e. g. , at least about 40 non-palindromic nt.

US Patent:

8435736, May 7, 2013

Filed:

Jun 22, 2010

Appl. No.:

12/820861

Inventors:

Daniel Glenn Gibson - Crofton MD, US
Hamilton O. Smith - San Diego CA, US

Assignee:

Synthetic Genomics, Inc. - La Jolla CA

International Classification:

C12Q 1/68
C12P 19/34
C07H 21/02
C07H 21/04

US Classification:

435 61, 435 912, 536 231, 536 243

Abstract:

The present invention relates to an in vitro method, using isolated protein reagents, for joining two double-stranded (ds) DNA molecules of interest, wherein the distal region of the first DNA molecule and the proximal region of the second DNA molecule share a region of sequence identity. The method allows the joining of a number of DNA fragments, in a predetermined order and orientation, without the use of restriction enzymes. It can be used, e. g. , to join synthetically produced sub-fragments of a gene or genome of interest.

US Patent:

8571371, Oct 29, 2013

Filed:

Jun 15, 2011

Appl. No.:

13/160760

Inventors:

Daniel J. Gibson - Cheverly MD, US
Jasbinder S. Sanghera - Ashburn VA, US
Frederic H. Kung - Alexandria VA, US
Pablo C Pureza - Burke VA, US
Robert E Miklos - La Plata MD, US
Guillermo R. Villalobos - Springfield VA, US
Leslie Brandon Shaw - Woodbridge VA, US
Ishwar D. Aggarwal - Charlotte NC, US

Assignee:

The United States of America as represented by the Secretary of the Navy - Washington DC

International Classification:

G02B 6/032

US Classification:

385125

Abstract:

A method and apparatus for making a substantially void-free preform for a microstructured optical fiber using a one-step process is provided. A preform is prepared from specialty glasses using a direct extrusion method. A die for use with the direct extrusion method is also provided, and a method for drawing the preform into a HC-PBG fiber for use in transmitting infra-red wavelength light is also provided. The preform comprises an outer jacket made of solid glass, a cladding having a plurality of air holes arranged in a desired pattern within the jacket, and a core which is hollow.

US Patent:

20090275086, Nov 5, 2009

Filed:

Oct 7, 2008

Appl. No.:

12/247126

Inventors:

Daniel G. Gibson - Crofton MD, US
Lei Young - Gaithersburg MD, US
John I. Glass - Germantown MD, US
Gwynedd A. Benders - San Diego CA, US
J. Craig Venter - La Jolla CA, US
Hamilton O. Smith - San Diego CA, US

Assignee:

Synthetic Genomics, Inc. - La Jolla CA

International Classification:

C12P 19/34
C12N 1/19
C07H 21/04

US Classification:

435 911, 4352542, 536 231

Abstract:

A method to assemble any desired nucleic acid molecule by combining cassettes in vitro to form assemblies which are further combined in vivo, or by assembling large numbers of DNA fragments by recombination in a yeast culture to obtain desired DNA molecules of substantial size is described.

US Patent:

20100035768, Feb 11, 2010

Filed:

Feb 13, 2009

Appl. No.:

12/371543

Inventors:

Daniel G. GIBSON - Crofton MD, US
Hamilton O. SMITH - San Diego CA, US
Clyde A. HUTCHISON - La Jolla CA, US
Lei YOUNG - Gaithersburg MD, US
J. Craig VENTER - La Jolla CA, US

International Classification:

C12P 19/34
C40B 40/08
C07H 21/04

US Classification:

506 17, 435 912, 536 231

Abstract:

The present invention relates to methods of joining two or more double-stranded (ds) or single-stranded (ss) DNA molecules of interest in vitro, wherein the distal region of the first DNA molecule and the proximal region of the second DNA molecule of each pair share a region of sequence identity. The method allows the joining of a large number of DNA fragments, in a predetermined order and orientation, without the use of restriction enzymes. It can be used, e.g., to join synthetically produced sub-fragments of a gene or genome of interest. Kits for performing the method are also disclosed. The methods of joining DNA molecules may be used to generate combinatorial libraries useful to generate, for example, optimal protein expression through codon optimization, gene optimization, and pathway optimization.

US Patent:

20100184187, Jul 22, 2010

Filed:

Mar 30, 2010

Appl. No.:

12/750571

Inventors:

Lei YOUNG - Gaithersburg MD, US
Hamilton O. Smith - San Diego CA, US
Daniel Glenn Gibson - Crofton MD, US

International Classification:

C12N 9/12

US Classification:

435194

Abstract:

The present invention relates, e.g., to in vitro method, using isolated protein reagents, for joining two double stranded (ds) DNA molecules of interest, wherein the distal region of the first DNA molecule and the proximal region of the second DNA molecule share a region of sequence identity, comprising contacting the two DNA molecules in a reaction mixture with (a) a non-processive 5′ exonuclease; (b) a single stranded DNA binding protein (SSB) which accelerates nucleic acid annealing; (c) a non strand-displacing DNA polymerase; and (d) a ligase, under conditions effective to join the two DNA molecules to form an intact double stranded DNA molecule, in which a single copy of the region of sequence identity is retained. The method allows the joining of a number of DNA fragments, in a predetermined order and orientation, without the use of restriction enzymes.

US Patent:

20100303429, Dec 2, 2010

Filed:

May 26, 2009

Appl. No.:

12/471668

Inventors:

Daniel J. Gibson - Greenbelt MD, US
Jasbinder S. Sanghera - Ashburn VA, US
Frederic H. Kung - Alexandria VA, US
Ishwar D. Aggarwal - Fairfax Station VA, US

Assignee:

The Government of the United States of America, as represented by the Secretary of the Navy - Washington DC

International Classification:

G02B 6/032
G02B 6/036
C03B 37/02
C03B 37/075

US Classification:

385125, 385128, 65393

Abstract:

A method and apparatus for making a substantially void-free microstructured optical fiber using a one-step process is provided. A preform for the optical fiber is prepared, comprising an outer jacket made of solid glass, a cladding having a plurality of microtubes and/or microcanes arranged in a desired pattern within the jacket, and a core which may be solid or hollow, with the cladding and the core extending above the top of the outer jacket. The thus-prepared preform is placed into a fiber draw tower. As the fiber is drawn, negative gas pressure is applied to draw the canes together and consolidate the interfacial voids between the canes while positive gas pressure is applied to the preform to keep the holes of the microcanes open during the fiber drawing. The apparatus includes a jig having support tubes that are connected to a vacuum pump for application of the negative gas pressure and a vent tube connected to a gas supply for application of the positive gas pressure. The interfaces between the support tube and the outer jacket and between the vent tube and the cladding are sealed to ensure that the appropriate application of negative or positive pressure during the draw step is obtained. The preforms according to the present invention can include one or more components fabricated from specialty non-silica glass.