Talk:Zebrafish Development - Revision history

Z8600021 at 16:05, 24 August 2023

2023-08-24T16:05:50Z

← Older revision		Revision as of 03:05, 25 August 2023
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	[[Shark Development]]		[[Shark Development]]

			==2023==

			Novel Development of Magnetic Resonance Imaging to Quantify the Structural Anatomic Growth of Diverse Organs in Adult and Mutant Zebrafish
			PMID: 37603286

			Zebrafish (Danio rerio) is a widely used vertebrate animal for modeling genetic diseases by targeted editing strategies followed by gross phenotypic and biomarker characterization. While larval transparency permits microscopic detection of anatomical defects, histological adult screening for organ-level defects remains invasive, tedious, inefficient, and subject to technical artifact. Here, we describe a noninvasive magnetic resonance imaging (MRI) approach to systematically screen adult zebrafish for anatomical growth defects. An anatomical atlas of wild-type (WT) zebrafish at 5-31 months post-fertilization was created by ex vivo MRI with a 9.4 T magnet. Volumetric growth over time was measured of animals and major organs, including the brain, spinal cord, heart, eyes, optic nerve, ear, liver, kidneys, and swim bladder. Subsequently, surf1-/-, fbxl4-/-, and opa1+/- mitochondrial disease mutant adult zebrafish were quantitatively studied to compare organ volumes with age-matched WT zebrafish. Results demonstrated that MRI enabled noninvasive, high-resolution, rapid screening of mutant adult zebrafish for overall and organ-specific growth abnormalities. Detailed volumetric analyses of three mitochondrial disease mutants delineated specific organ differences, including significantly increased brain growth in surf1-/- and opa1+/-, and marginally significant decreased heart and spinal cord volumes in surf1-/- mutants. This is interesting as we know neurological involvement can be seen in SURF1-/- patients with ataxia, dystonia, and lesions in basal ganglia, as well as in OPA1+/- patients with spasticity, ataxia, and hyperreflexia indicative of neuropathology. Similarly, cardiomyopathy is a known sequelae of cardiac pathology in patients with SURF1-/--related disease. Future studies will define MRI signaling patterns of organ dysfunction to further delineate specific pathology.


	==2021==		==2021==

Z8600021 at 04:54, 12 December 2021

2021-12-12T04:54:25Z

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	ZebraShare: a new venue for rapid dissemination of zebrafish mutant data		ZebraShare: a new venue for rapid dissemination of zebrafish mutant data

	April DeLaurier # 1 , Douglas G Howe 2 , Leyla Ruzicka 2 , Adam N Carte 3 4 5 , Lacie Mishoe Hernandez 1 , Kali J Wiggins 1 , Mika M Gallati 6 , Kayce Vanpelt 1 , Frances Loyo Rosado 1 , Katlin G Pugh 1 , Chasey J Shabdue 1 , Khadijah Jihad 1 , Summer B Thyme 7 , Jared C Talbot # 6
	~~Affiliations expand~~
	PMID: 33954026 PMCID: PMC8051354 DOI: 10.7717/peerj.11007		PMID: 33954026 PMCID: PMC8051354 DOI: 10.7717/peerj.11007
	Free PMC article		Free PMC article

Z8600021 at 04:54, 12 December 2021

2021-12-12T04:54:04Z

← Older revision		Revision as of 15:54, 12 December 2021
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	[[Shark Development]]		[[Shark Development]]

			==2021==


			ZebraShare: a new venue for rapid dissemination of zebrafish mutant data

			April DeLaurier # 1 , Douglas G Howe 2 , Leyla Ruzicka 2 , Adam N Carte 3 4 5 , Lacie Mishoe Hernandez 1 , Kali J Wiggins 1 , Mika M Gallati 6 , Kayce Vanpelt 1 , Frances Loyo Rosado 1 , Katlin G Pugh 1 , Chasey J Shabdue 1 , Khadijah Jihad 1 , Summer B Thyme 7 , Jared C Talbot # 6
			Affiliations expand
			PMID: 33954026 PMCID: PMC8051354 DOI: 10.7717/peerj.11007
			Free PMC article
			Abstract

			Background: In the past decade, the zebrafish community has widely embraced targeted mutagenesis technologies, resulting in an abundance of mutant lines. While many lines have proven to be useful for investigating gene function, many have also shown no apparent phenotype, or phenotypes not of interest to the originating lab. In order for labs to document and share information about these lines, we have created ZebraShare as a new resource offered within ZFIN.

			Methods: ZebraShare involves a form-based submission process generated by ZFIN. The ZebraShare interface (https://zfin.org/action/zebrashare) can be accessed on ZFIN under "Submit Data". Users download the Submission Workbook and complete the required fields, then submit the completed workbook with associated images and captions, generating a new ZFIN publication record. ZFIN curators add the submitted phenotype and mutant information to the ZFIN database, provide mapping information about mutations, and cross reference this information across the appropriate ZFIN databases. We present here examples of ZebraShare submissions, including phf21aa, kdm1a, ctnnd1, snu13a, and snu13b mutant lines.

			Results: Users can find ZebraShare submissions by searching ZFIN for specific alleles or line designations, just as for alleles submitted through the normal process. We present several potential examples of submission types to ZebraShare including a phenotypic mutants, mildly phenotypic, and early lethal mutants. Mutants for kdm1a show no apparent skeletal phenotype, and phf21aa mutants show only a mild skeletal phenotype, yet these genes have specific human disease relevance and therefore may be useful for further studies. The p120-catenin encoding gene, ctnnd1, was knocked out to investigate a potential role in brain development or function. The homozygous ctnnd1 mutant disintegrates during early somitogenesis and the heterozygote has localized defects, revealing vital roles in early development. Two snu13 genes were knocked out to investigate a role in muscle formation. The snu13a;snu13b double mutant has an early embryonic lethal phenotype, potentially related to a proposed role in the core splicing complex. In each example, the mutants submitted to ZebraShare display phenotypes that are not ideally suited to their originating lab's project directions but may be of great relevance to other researchers.

			Conclusion: ZebraShare provides an opportunity for researchers to directly share information about mutant lines within ZFIN, which is widely used by the community as a central database of information about zebrafish lines. Submissions of alleles with a phenotypic or unexpected phenotypes is encouraged to promote collaborations, disseminate lines, reduce redundancy of effort and to promote efficient use of time and resources. We anticipate that as submissions to ZebraShare increase, they will help build an ultimately more complete picture of zebrafish genetics and development.


	==2020==		==2020==

Z8600021 at 23:24, 13 Mayıs 2020

2020-05-13T23:24:08Z

← Older revision		Revision as of 10:24, 14 Mayıs 2020
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	==2020==		==2020==

			{{#pmid:32116574}}

			'''Conserved Genoarchitecture of the Basal Hypothalamus in Zebrafish Embryos'''

			Analyses of genoarchitecture recently stimulated substantial revisions of anatomical models for the developing hypothalamus in mammalian and other vertebrate systems. The prosomeric model proposes the hypothalamus to be derived from the secondary prosencephalon, and to consist of alar and basal regions. The basal hypothalamus can further be subdivided into tuberal and mamillary regions, each with distinct subregions. Albeit being a widely used model system for neurodevelopmental studies, no detailed genoarchitectural maps exist for the zebrafish (Danio rerio) hypothalamus. Here, we compare expression domains of zebrafish genes, including arxa, shha, otpa, isl1, lhx5, nkx2.1, nkx2.2a, pax6, and dlx5a, the orthologs of which delimit specific subregions within the murine basal hypothalamus. We develop the highly conserved brain-specific homeobox (bsx) gene as a novel marker for genoarchitectural analysis of hypothalamic regions. Our comparison of gene expression patterns reveals that the genoarchitecture of the basal hypothalamus in zebrafish embryos 48 hours post fertilization is highly similar to mouse embryos at E13.5. We found the tuberal hypothalamus in zebrafish embryos to be relatively large and to comprise previously ill-defined regions around the posterior hypothalamic recess. The mamillary hypothalamus is smaller and concentrates to rather medial areas in proximity to the anterior end of the neural tube floor plate. Within the basal hypothalamus we identified longitudinal and transverse tuberal and mamillary subregions topologically equivalent to those previously described in other vertebrates. However, the hypothalamic diencephalic boundary region and the posterior tuberculum still provide a challenge. We applied the updated prosomeric model to the developing zebrafish hypothalamus to facilitate cross-species comparisons. Accordingly, we applied the mammalian nomenclature of hypothalamic organization to zebrafish and propose it to replace some controversial previous nomenclature.
			Copyright © 2020 Schredelseker and Driever.
			KEYWORDS:
			bsx brain-specific homeobox; genoarchitecture; mamillary region; patterning; progenitor domains; prosomeric model; tuberal hypothalamus; zebrafish brain development
			PMCID: PMC7016197 DOI: 10.3389/fnana.2020.00003

	{{#pmid:32142861}}		{{#pmid:32142861}}

Z8600021 at 00:28, 30 April 2020

2020-04-30T00:28:59Z

← Older revision		Revision as of 11:28, 30 April 2020
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	[[Shark Development]]		[[Shark Development]]

			==2020==
			{{#pmid:32142861}}

			'''Zebrafish as a model for studying ovarian development: Recent advances from targeted gene knockout studies'''

			Ovarian development is a complex process controlled by precise coordination of multiple factors. The targeted gene knockout technique is a powerful tool to study the functions of these factors. The successful application of this technique in mice in the past three decades has significantly enhanced our understanding on the molecular mechanism of ovarian development. Recently, with the advent of genome editing techniques, targeted gene knockout research can be carried out in many species. Zebrafish has emerged as an excellent model system to study the control of ovarian development. Dozens of genes related to ovarian development have been knocked out in zebrafish in recent years. Much new information and perspectives on the molecular mechanism of ovarian development have been obtained from these mutant zebrafish. Some findings have challenged conventional views. Several genes have been identified for the first time in vertebrates to control ovarian development. Focusing on ovarian development, the purpose of this review is to briefly summarize recent findings using these gene knockout zebrafish models, and compare these findings with mammalian models. These established mutants and rapid development of gene knockout techniques have prompted zebrafish as an ideal animal model for studying ovarian development.
			Copyright © 2020 The Author(s). Published by Elsevier B.V. All rights reserved.
			KEYWORDS:
			CRISPR/Cas9; Gene knockout; Germ cell; Ovary; TALEN; ZFN; Zebrafish
			DOI: 10.1016/j.mce.2020.110778


	==Stages==		==Stages==

Z8600021 at 00:16, 30 April 2020

2020-04-30T00:16:55Z

← Older revision		Revision as of 11:16, 30 April 2020
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	==2019==		==2019==
			{{#pmid:30109407}}

			'''Anatomy, development, and plasticity of the neurosecretory hypothalamus in zebrafish'''

			The paraventricular nucleus (PVN) of the hypothalamus harbors diverse neurosecretory cells with critical physiological roles for the homeostasis. Decades of research in rodents have provided a large amount of information on the anatomy, development, and function of this important hypothalamic nucleus. However, since the hypothalamus lies deep within the brain in mammals and is difficult to access, many questions regarding development and plasticity of this nucleus still remain. In particular, how different environmental conditions, including stress exposure, shape the development of this important nucleus has been difficult to address in animals that develop in utero. To address these open questions, the transparent larval zebrafish with its rapid external development and excellent genetic toolbox offers exciting opportunities. In this review, we summarize recent information on the anatomy and development of the neurosecretory preoptic area (NPO), which represents a similar structure to the mammalian PVN in zebrafish. We will then review recent studies on the development of different cell types in the neurosecretory hypothalamus both in mouse and in fish. Lastly, we discuss stress-induced plasticity of the PVN mainly discussing the data obtained in rodents, but pointing out tools and approaches available in zebrafish for future studies. This review serves as a primer for the currently available information relevant for studying the development and plasticity of this important brain region using zebrafish.
			KEYWORDS:
			Hypothalamus; Paraventricular nucleus; Stress; Zebrafish
			DOI: 10.1007/s00441-018-2900-4

	===Zebrafish znfl1s regulate left-right asymmetry patterning through controlling the expression of fgfr1a===		===Zebrafish znfl1s regulate left-right asymmetry patterning through controlling the expression of fgfr1a===

Z8600021 at 01:13, 18 Ocak 2019

2019-01-18T01:13:52Z

← Older revision		Revision as of 12:13, 18 Ocak 2019
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	[[Shark Development]]		[[Shark Development]]

	~~==10 Most Recent Papers==~~
	~~{{10 Most Recent}}~~

	==Stages==		==Stages==

Z8600021 at 01:13, 18 Ocak 2019

2019-01-18T01:13:34Z

← Older revision		Revision as of 12:13, 18 Ocak 2019
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	{{10 Most Recent}}		{{10 Most Recent}}

	===Zebrafish ~~Development~~===		==Stages==
	~~<pubmed limit~~=~~5>Zebrafish Development</pubmed>~~
			{{Zebrafish stages table}}

			==2019==

	===Zebrafish ~~Embryology~~===		===Zebrafish znfl1s regulate left-right asymmetry patterning through controlling the expression of fgfr1a===
	~~<pubmed limit=5>Zebrafish Embryology</pubmed>~~		{{#pmid:30317609}}

	~~==Stages==~~		J Cell Physiol. 2019 Mar;234(3):1987-1995. doi: 10.1002/jcp.27564. Epub 2018 Oct 14.

	~~{{Zebrafish stages table}}~~

			Li J1, Gao F2, Zhao Y2, He L3, Huang Y2, Yang X2, Zhou Y1, Yu L2, Zhao Q3, Dong X2.
			Author information
			Abstract
			Proper left-right (LR) axis establishment is critical for organogenesis in vertebrates. Previously, we reported that zinc finger transcription factors zinc finger transcription factor 1 (znfl1s) are expressed in the tailbud and axial mesoderm in zebrafish. However, a role of znfl1s in LR axis development has not been demonstrated. Here, we discovered that the knockdown of znfl1s using morpholino (MO) in whole embryos or dorsal forerunner cells (DFCs) interrupted LR asymmetry and normal development of the heart, liver, and pancreas. Whole-embryo knockdown of znfl1s by MO or clustered regularly interspaced short palindromic repeat (CRISPR) interference (CRISPRi) resulted in the absent expression of nodal gene spaw and Nodal signaling-related genes lft1, lft2, and pitx2c in the left lateral plate mesoderm (LPM), and Spaw, Lft1, Lft2, and Pitx2c play important roles in LR axis development in zebrafish. However, specific knockdown of znfl1s in DFCs resulted in random expression of spaw, lft1, lft2, and pitx2c. Knockdown of znfl1s led to abnormal cilia formation by the downregulation of fgfr1a and foxj1a expression. The expression of spaw, lft1, lft2, and pitx2c was partially rescued by the overexpression of fgfr1a mRNA in znfl1s morphants. Taken together, our results suggest that znfl1s regulate laterality development in zebrafish embryos through controlling the expression of fgfr1a.
			© 2018 Wiley Periodicals, Inc.
			KEYWORDS:
			Nodal-Pitx2 pathway; fgfr1a; foxj1a; left-right (LR) asymmetry; zebrafish; zinc finger transcription factor 1 (znfl1s)
			PMID: 30317609 DOI: 10.1002/jcp.27564

	==2016==		==2016==

Z8600021 at 01:02, 7 July 2018

2018-07-07T01:02:47Z

← Older revision		Revision as of 12:02, 7 July 2018
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	{{Zebrafish stages table}}		{{Zebrafish stages table}}

	~~:'''Links:''' {{zebrafish}}~~

	~~{{Judith Cebra-Thomas‎}}~~

	~~{{Student Image}}~~

	~~{{Footer}}~~
	~~[[Category:Zebrafish]]~~

	~~{\| class="wikitable" style="margin: 1em auto 1em auto"~~
	~~\|'''Duration''' \|\| '''Period Name''' \|\| '''Image'''~~
	\|-
	~~\| 0 - 0.75 hrs \|\| '''[[Zygote Period]]''' \|\| [[File:Zygote_-_this_image.png‎\|The Zygote Period. Photo supplied by Judy Cebra-Thomas]]~~
	\|-
	~~\| 0.75 - 2.25 hrs \|\|'''[[Cleavage Period]]'''\|\|[[File:Cleavage_-_user.png\|The Cleavage Period. Photo supplied by Judy Cebra-Thomas]]~~
	\|-
	~~\| 2.25 - 5.25 hrs \|\|'''[[Blastula Period]]''' \|\|[[File:Last_try_blastula1.png\|The Blastula Period. Photo supplied by Judy Cebra-Thomas‎]]~~
	\|-
	~~\| 5.25 - 10.33 hrs \|\| '''[[Gastrula Period]]''' \|\|[[File:Gastrula.png‎\|The Gastrula Period. Photo supplied by Judy Cebra-Thomas]]~~
	\|-
	~~\| 10.33 - 24 hrs \|\|'''[[Segmentation Period]]''' \|\|[[File:Segmentation .png\|The Segmentation Period. Photo supplied by Judy Cebra-Thomas]]~~
	\|-
	~~\| 24 - 48 hrs \|\| '''[[#Pharyngula Period\|Pharyngula Period]]''' \|\| [[File:Pharyngula.png\|The Pharyngula Period. Photo supplied by Judy Cebra-Thomas]]~~
	\|-
	~~\| 48-72 hrs \|\|'''[[Hatching Period]]''' \|\|[[File:Hatching_.png\|The Hatching Period. Photo supplied by Judy Cebra-Thomas‎]]~~
	\|-
	~~\| 72 hrs - 30 Days \|\|'''[[Larval Period]]''' \|\|[[File:Larvae1.png\|The Larval Period. Photo supplied by Judy Cebra-Thomas‎]]~~
	\|}

Z8600021 at 01:02, 7 July 2018

2018-07-07T01:02:17Z

← Older revision		Revision as of 12:02, 7 July 2018
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	==Stages==		==Stages==

			{{Zebrafish stages table}}

			:'''Links:''' {{zebrafish}}

			{{Judith Cebra-Thomas‎}}

			{{Student Image}}

			{{Footer}}
			[[Category:Zebrafish]]

	{\| class="wikitable" style="margin: 1em auto 1em auto"		{\| class="wikitable" style="margin: 1em auto 1em auto"