Deposition

In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling

Deposition ID:CZCDP-10300

Release Date: 2024-04-09

Last Modified: 2024-04-09

key visualization for In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling

Photo Caption: Central slab of 4 representative tomograms with selected sets of annotations.

Deposition Overview

Cryo-electron tomography dataset of cryo-plasmaFIB milled lamella of Chlamydomonas reinhardtii. Contained tomograms are partially annotated, including annotations for ribosomes, nucleosomes, F1F0-ATPase, RubisCO, and microtubules.

Authors

Ron Kelley
,
Sagar Khavnekar
,
Xianjun Zhang
,
Martin Obr
,
Ricardo D. Righetto
,
Florent Waltz
,
Wojciech Wietrzynski
,
Alicia K Michael
,
Grigory Tagiltsev
,
Florian Beck
,
Ellen Zhong
,
William Wan
,
John Briggs
,
M. Jürgen Plitzko
,
Benjamin D. Engel
,
Abhay Kotecha

Deposition Data

Annotations:30

Publications

DOI:10.1093/micmic/ozad067.480

Related Databases

EMPIAR ID:EMPIAR-11756

Methods Summary

Annotations	Method Type	Method Details	Method Links
30	Hybrid	Template matching + manual filtering + 3D classification filtering	Source Code:STOPGAP +1 more

Deposited Data

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Data Contents

Tilt SeriesAvailable

FramesAvailable

CTFNA

AlignmentAvailable

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30 of 30 Annotations

Annotation Name	Object Shape Type	Method Type	Deposited In
104RubisCO complex Annotation ID: AN-2290 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_7
102cytosolic ribosome Annotation ID: AN-2289 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_44
103nucleosome Annotation ID: AN-2288 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_33
102cytosolic ribosome Annotation ID: AN-2287 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_33
105microtubule Annotation ID: AN-2286 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_13
102cytosolic ribosome Annotation ID: AN-2285 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 27042022_BrnoKrios_Arctis_grid9_hGIS_Position_13
105microtubule Annotation ID: AN-2284 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_76
102cytosolic ribosome Annotation ID: AN-2283 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_76
102cytosolic ribosome Annotation ID: AN-2282 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_68
103nucleosome Annotation ID: AN-2281 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_35
102cytosolic ribosome Annotation ID: AN-2280 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_35
104RubisCO complex Annotation ID: AN-2279 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 17072022_BrnoKrios_Arctis_p3ar_grid_Position_101
102cytosolic ribosome Annotation ID: AN-2278 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 15042022_BrnoKrios_Arctis_grid9_Position_65
102cytosolic ribosome Annotation ID: AN-2277 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 15042022_BrnoKrios_Arctis_grid9_Position_32
102cytosolic ribosome Annotation ID: AN-2276 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 14042022_BrnoKrios_Arctis_grid5_Position_1
101F1-F0 complex Annotation ID: AN-2275 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 14042022_BrnoKrios_Arctis_grid5_Position_1
100F1-F0 complex Annotation ID: AN-2274 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 14042022_BrnoKrios_Arctis_grid5_Position_1
105microtubule Annotation ID: AN-2273 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 12052022_BrnoKrios_Arctis_grid_newGISc_Position_38
102cytosolic ribosome Annotation ID: AN-2272 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 12052022_BrnoKrios_Arctis_grid_newGISc_Position_38
102cytosolic ribosome Annotation ID: AN-2271 Ground Truth	OrientedPoint	Hybrid	Dataset: In situ cryo-ET dataset of Chlamydomonas reinhardtii prepared using cryo-plasmaFIB milling Run: 08042022_BrnoKrios_Arctis_grid5_gistest_Position_4