Section on Biophotonics

The NIBIB Section on Biophotonics develops probes and techniques for use in diffraction limited and sub-diffraction limited fluorescence imaging of cells and tissues. Major emphasis is placed on developing new and improving existing genetically encoded fluorescent proteins for use as markers and sensors. Methods and technologies include confocal, TIRF, and wide-field microscopes, single-molecule imaging, fluorescence spectroscopy, and protein engineering.

Cell and Tissue Imaging Projects

This is a high resolution image of fluorescing tissue.

My lab uses these techniques in several collaborative studies including imaging of virus-infected cells to determine viral and host protein localizations at various times after infection. We are also using these techniques to study the precise localizations within the Golgi apparatus of the enzymes involved in sugar modifications. And we are comparing the localization of sodium phosphate transporters with the localization of proteins thought to be involved in their cellular transport in route to determining the mechanisms of how the transporters are up regulated or down regulated depending on serum phosphate levels.

Fluorescent Protein Studies

This is a picture of several test tubes containing fluorescent protein

Another major topic in my lab is the development of fluorescent proteins for use in the techniques and imaging projects discussed earlier. We are currently studying by spectral and microscopy analysis several photochemical processes commonly found in fluorescent proteins. These include photobleaching (irradiation induced destruction, photoconversion (irradiation induced excitation and/or emission spectra alterations, photoswitching (irradiation induced switching on and off of fluorescence), photoactivation (irradiation induced switch from a nonfluorescent molecule to a fluorescent molecule), and single molecule blinking (spontaneous and/or irradiation induced switching on and off of molecules). Our approach is to determine by site-directed mutagenesis which amino acids are involved in each of these processes in route to modifying them to either enhance or inhibit these processes. With this information, we are systematically improving the desired characteristics while diminishing the undesirable characteristics of existing fluorescent proteins in addition to development of new variants.

Photo-activated localization microscopy (PALM) and other molecular localization techniques are based on imaging of single fluorescent molecules. This is followed by determining their localization with high precision by fitting their fluorescent signal to a function, such as a two-dimensional Gaussian, which gives the coordinates of the molecule. The imaging of single molecules requires the ability to distinguish those molecules in a much larger population, so the density of the spots must be relatively sparse. This can be done in several techniques depending on the fluorophore and how the sparse population is maintained. For PALM and a similar technique Fluorescence-PALM (F-PALM) developed by Sam Hess and colleagues, photoactivatable and/or photoconvertible fluorescent proteins which are switched from an off state to an on state or from one wavelength to another respectively, were initially used. For Stochastic Optical Reconstruction Microscopy (STORM), PALM with Independent Running Acquisition (PALMIRA), and Direct STORM (dSTORM), photoswitchable dyes and photoswitchable fluorescent proteins are the usual probes. My lab currently has a home-built system capable of imaging up to three colors of photoactivatable, photoconvertible, or photoswitchable probes for localization in both lateral and axial dimensions.

In addition, we have recently incorporated into the PALM microscope mentioned above a new structured illumination microscopy technique developed by our colleagues in the Section on High Resolution Opitcal Imaging. Multi-focal structured illumination microscopy (MSIM) is based on exciting fluorophores with an array of diffraction-limited spots, collecting images of these spots at ~1 pixel increments until the entire field of view is sampled, and processing the images by scaling and deconvolution to produce an ~ 2-fold improvement in resolution. Importantly, MSIM achieves this 2-fold improvement in resolution while imaging at depths up to 50 µm in cells and tissues.

Another microscope constructed in my lab is an even illumination multi-angle total internal reflection fluorescence microscopy. Here, the beam is focused at the back focal plane and moved around the periphery at a position which maintains TIRF excitation but leads to a more evenly illuminated specimen by averaging of the excitation spot. This requires image exposures long enough to collect emission resulting from excitation as the evanescent wave propagates from all directions. We can also couple this with excitation at multiple angles to allow excitation and imaging at different depths of the specimen.

Jacoby-Morris KPatterson GH
Methods Mol Biol

Zhao HWu DNguyen ALi YAdão RCValkov EPatterson GHPiszczek GSchuck P
2021 Jun 25

Shomron ONevo-Yassaf IAviad TYaffe YZahavi EEDukhovny APerlson EBrodsky IYeheskel APasmanik-Chor MMironov ABeznoussenko GVMironov AASklan EHPatterson GHYonemura YSannai MKaether CHirschberg K
J Cell Biol
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Nat Commun
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Nat Commun
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Rainey KHPatterson GH
Proc Natl Acad Sci U S A
2019 Jan 15

Guo MChandris PGiannini JPTrexler AJFischer RChen JVishwasrao HDRey-Suarez IWu YWu XWaterman CMPatterson GHUpadhyaya ATaraska JWShroff H
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2018 Jun

Salka KBhuvanendran SWilson KBozidis PMehta MRainey KSesaki HPatterson GHJaiswal JKColberg-Poley AM
Sci Rep
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2016 Apr 19

Sengupta PSatpute-Krishnan PSeo AYBurnette DTPatterson GHLippincott-Schwartz J
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Long AHHaso WMShern JFWanhainen KMMurgai MIngaramo MSmith JPWalker AJKohler MEVenkateshwara VRKaplan RNPatterson GHFry TJOrentas RJMackall CL
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2015 Jun

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Med Microbiol Immunol
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Anal Chem
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Bhuvanendran SSalka KRainey KSreetama SCWilliams ELeeker MPrasad VBoyd JPatterson GHJaiswal JKColberg-Poley AM
2014 Apr 09

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2014 Mar 17

Zhao HBerger AJBrown PHKumar JBalbo AMay CACasillas ELaue TMPatterson GHMayer MLSchuck P
J Gen Physiol
2013 Jun

Yang JSingh VCha BChen TESarker RMurtazina RJin SZachos NCPatterson GHTse CMKovbasnjuk OLi XDonowitz M
J Biol Chem
2013 Jun 07

Zhao HBerger AJBrown PHKumar JBalbo AMay CACasillas ELaue TMPatterson GHMayer MLSchuck P
J Gen Physiol
2012 May

Datta SRPatterson GH
Curr Opin Neurobiol
2012 Feb

Subach OMPatterson GHTing LMWang YCondeelis JSVerkhusha VV
Nat Methods
2011 Jul 31

Subach FVPatterson GHRenz MLippincott-Schwartz JVerkhusha VV
J Am Chem Soc
2010 May 12

Patterson GH
Semin Cell Dev Biol
2009 Oct

Subach FVPatterson GHManley SGillette JMLippincott-Schwartz JVerkhusha VV
Nat Methods
2009 Feb

Patterson GHHirschberg KPolishchuk RSGerlich DPhair RDLippincott-Schwartz J
2008 Jun 13

Patterson GH
Methods Mol Biol

Manley SGillette JMPatterson GHShroff HHess HFBetzig ELippincott-Schwartz J
Nat Methods
2008 Feb

Lippincott-Schwartz JPatterson GH
Methods Cell Biol

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J Cell Sci
2007 Dec 15

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2006 Sep 15

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2006 Mar

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Mol Biol Cell
2006 May

Patterson GH
Nat Biotechnol
2004 Dec

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2004 Apr

Lippincott-Schwartz JAltan-Bonnet NPatterson GH
Nat Cell Biol
2003 Sep

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2003 Apr 04

Patterson GHLippincott-Schwartz J
2002 Sep 13