A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies
Transgenic methods enable the selective manipulation of neurons for functional mapping of neuronal circuits. Using confocal microscopy, we have imaged the cellular-level expression of 109 transgenic lines in live 6 day post fertilization larvae, including 80 Gal4 enhancer trap lines, 9 Cre enhancer...
Main Authors: | , , , , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
Frontiers Media S.A.
2015-11-01
|
Series: | Frontiers in Neural Circuits |
Subjects: | |
Online Access: | http://journal.frontiersin.org/Journal/10.3389/fncir.2015.00078/full |
id |
doaj-e29e71278a8a450982d6bdc8d63b16f1 |
---|---|
record_format |
Article |
spelling |
doaj-e29e71278a8a450982d6bdc8d63b16f12020-11-25T00:00:26ZengFrontiers Media S.A.Frontiers in Neural Circuits1662-51102015-11-01910.3389/fncir.2015.00078171310A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studiesGregory D Marquart0Gregory D Marquart1Kathryn M Tabor2Mary eBrown3Jennifer L Strykowski4Gaurav K Varshney5Matthew C LaFave6Thomas eMueller7Shawn M Burgess8Shin-ichi eHigashijima9Harold A Burgess10Harold A Burgess11National Institute for Child Health and Human DevelopmentUniversity of MarylandNational Institute for Child Health and Human DevelopmentNational Institute for Child Health and Human DevelopmentNational Institute for Child Health and Human DevelopmentNational Human Genome Research Institute, National Institutes of HealthNational Human Genome Research Institute, National Institutes of HealthKansas State UniversityNational Human Genome Research Institute, National Institutes of HealthNational Institute for Physiological SciencesNational Institute for Child Health and Human DevelopmentUniversity of MarylandTransgenic methods enable the selective manipulation of neurons for functional mapping of neuronal circuits. Using confocal microscopy, we have imaged the cellular-level expression of 109 transgenic lines in live 6 day post fertilization larvae, including 80 Gal4 enhancer trap lines, 9 Cre enhancer trap lines and 20 transgenic lines that express fluorescent proteins in defined gene-specific patterns. Image stacks were acquired at single micron resolution, together with a broadly expressed neural marker, which we used to align enhancer trap reporter patterns into a common 3-dimensional reference space. To facilitate use of this resource, we have written software that enables searching for transgenic lines that label cells within a selectable 3-dimensional region of interest or neuroanatomical area. Many of the imaged enhancer trap lines show intrinsic brain-specific expression. However, to increase the utility of lines that also drive expression in non-neuronal tissue we have designed a novel UAS reporter, that suppresses expression in heart, muscle and skin through the incorporation of microRNA binding sites in a synthetic 3' untranslated region. Finally, we mapped the site of transgene integration, thus providing molecular identification of the expression pattern for most lines. Cumulatively, this library of enhancer trap lines provides genetic access to 70 % of the larval brain and is therefore a powerful and broadly accessible tool for the dissection of neural circuits in larval zebrafish.http://journal.frontiersin.org/Journal/10.3389/fncir.2015.00078/fullZebrafishmicroRNAtransgeniccreGal43D registration |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Gregory D Marquart Gregory D Marquart Kathryn M Tabor Mary eBrown Jennifer L Strykowski Gaurav K Varshney Matthew C LaFave Thomas eMueller Shawn M Burgess Shin-ichi eHigashijima Harold A Burgess Harold A Burgess |
spellingShingle |
Gregory D Marquart Gregory D Marquart Kathryn M Tabor Mary eBrown Jennifer L Strykowski Gaurav K Varshney Matthew C LaFave Thomas eMueller Shawn M Burgess Shin-ichi eHigashijima Harold A Burgess Harold A Burgess A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies Frontiers in Neural Circuits Zebrafish microRNA transgenic cre Gal4 3D registration |
author_facet |
Gregory D Marquart Gregory D Marquart Kathryn M Tabor Mary eBrown Jennifer L Strykowski Gaurav K Varshney Matthew C LaFave Thomas eMueller Shawn M Burgess Shin-ichi eHigashijima Harold A Burgess Harold A Burgess |
author_sort |
Gregory D Marquart |
title |
A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies |
title_short |
A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies |
title_full |
A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies |
title_fullStr |
A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies |
title_full_unstemmed |
A 3D searchable database of transgenic zebrafish Gal4 and Cre lines for functional neuroanatomy studies |
title_sort |
3d searchable database of transgenic zebrafish gal4 and cre lines for functional neuroanatomy studies |
publisher |
Frontiers Media S.A. |
series |
Frontiers in Neural Circuits |
issn |
1662-5110 |
publishDate |
2015-11-01 |
description |
Transgenic methods enable the selective manipulation of neurons for functional mapping of neuronal circuits. Using confocal microscopy, we have imaged the cellular-level expression of 109 transgenic lines in live 6 day post fertilization larvae, including 80 Gal4 enhancer trap lines, 9 Cre enhancer trap lines and 20 transgenic lines that express fluorescent proteins in defined gene-specific patterns. Image stacks were acquired at single micron resolution, together with a broadly expressed neural marker, which we used to align enhancer trap reporter patterns into a common 3-dimensional reference space. To facilitate use of this resource, we have written software that enables searching for transgenic lines that label cells within a selectable 3-dimensional region of interest or neuroanatomical area. Many of the imaged enhancer trap lines show intrinsic brain-specific expression. However, to increase the utility of lines that also drive expression in non-neuronal tissue we have designed a novel UAS reporter, that suppresses expression in heart, muscle and skin through the incorporation of microRNA binding sites in a synthetic 3' untranslated region. Finally, we mapped the site of transgene integration, thus providing molecular identification of the expression pattern for most lines. Cumulatively, this library of enhancer trap lines provides genetic access to 70 % of the larval brain and is therefore a powerful and broadly accessible tool for the dissection of neural circuits in larval zebrafish. |
topic |
Zebrafish microRNA transgenic cre Gal4 3D registration |
url |
http://journal.frontiersin.org/Journal/10.3389/fncir.2015.00078/full |
work_keys_str_mv |
AT gregorydmarquart a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT gregorydmarquart a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT kathrynmtabor a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT maryebrown a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT jenniferlstrykowski a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT gauravkvarshney a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT matthewclafave a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT thomasemueller a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT shawnmburgess a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT shinichiehigashijima a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT haroldaburgess a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT haroldaburgess a3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT gregorydmarquart 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT gregorydmarquart 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT kathrynmtabor 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT maryebrown 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT jenniferlstrykowski 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT gauravkvarshney 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT matthewclafave 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT thomasemueller 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT shawnmburgess 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT shinichiehigashijima 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT haroldaburgess 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies AT haroldaburgess 3dsearchabledatabaseoftransgeniczebrafishgal4andcrelinesforfunctionalneuroanatomystudies |
_version_ |
1725445113357795328 |