2024-08-07 REL RCSB RCSB RCSB 2024-02-29 2024-03-13 2024-03-13 2024-08-07 Howard Hughes Medical Institute (HHMI) United States National Science Foundation (NSF, United States) DGE 1106400 United States Structure of the auto-fluorescent membrane-bound red body organelle from Nannochloropsis oceanica in situ Grob P Danielle J Gee CW Organelle, Algae, Intracellular Transport, Carotenoid, LIPID TRANSPORT Gee CW Andersen-Ranberg J Boynton E Rosen RZ Jorgens D Grob P Holman HN Niyogi KK Implicating the red body of Nannochloropsis in forming the recalcitrant cell wall polymer algaenan. Nat Commun UK 15 5456 5456 2024 38937455 doi:10.1038/s41467-024-49277-y 2041-1723 Nannochloropsis oceanica CCMP1779 Nannochloropsis oceanica CCMP1779 0
Tomographic reconstruction of a red body organelle from Nannochloropsis oceanica in situ
Nannochloropsis oceanica CCMP1779 tomography cell 8.1 2.0 NaH4Cl ammonium chloride 0.083 NaH2PO4 monosodium phosphate 10.0 TRIS-HCl TRIS hydrochloride Quantifoil R2/2 GOLD 300 CARBON HOLEY ARRAY 12.0 PLASMA CLEANING AIR 0.027
the grid was soaked in chloroform before use
 ETHANE 100 283 FEI VITROBOT MARK IV
Blotted manually from opposite side of the grid.
Nannochloropsis oceanica CCMP1779 cells were grown in artificial seawater and f-media enrichment entrained to a 12-12 light-dark photoperiod and sampled in mid-log phase (~1x10^7 cells/ml), shortly after subjective dark when cells are undergoing division.
OTHER OTHER 30 0.037 600 123 1000 380
Grids were transfered to a Leica Ace 900 (Leica Microsystems) for coating with 5nm of platinum prior to being transferred to the Zeiss Crossbeam 540 (Zeiss, Germany). The Zeiss Crossbeam 540 operated with a Leica CryoStage (Leica Microsystems, GmbH) cooled to -150 deg. C was used for milling and imaging of the frozen cells. To create lamellae used for cryo-tomography, milling was performed with a gallium ion source at an energy of 37 pA and a working distance of 5mm. Imaging of the grid and milled lamellae was done using an Everhart-Thornley detector at 2.0 kV.. The value given for _em_focused_ion_beam.instrument is Zeiss Crossbeam 540. This is not in a list of allowed values {'OTHER', 'DB235'} so OTHER is written into the XML file.
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 2.7 1.6 6.0 15000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 35 GATAN K3 (6k x 4k) 100.0
images were collected in movie mode and super resolution
 1
the movie frames were aligned with MotionCor2 and binned to normal resolution
BACK PROJECTION IMOD 4.11.24 Etomo 61 emd_43893.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 953 809 190 47 539 -77 953 809 190 21089.889 17903.17 4204.6997 90.0 90.0 90.0 X Y Z -0.35291177 0.42991072 0.022530546 0.046284698 22.13 22.13 22.13 AUTHOR Tomographic reconstruction of a cryo-lamella through a Nannochloropsis oceanica cell showing a red body within its cellular context.