@article {48622,
	title = {Cryo-electron tomography reveals novel features of a viral RNA replication compartment.},
	journal = {eLife},
	volume = {6},
	year = {2017},
	month = {2017 Jun 27},
	abstract = {<p>Positive-strand RNA viruses, the largest genetic class of viruses, include numerous important pathogens such as Zika virus. These viruses replicate their RNA genomes in novel, membrane-bounded mini-organelles, but the organization of viral proteins and RNAs in these compartments is largely unknown. We used cryo-electron tomography to reveal many previously unrecognized features of Flock house nodavirus (FHV) RNA replication compartments. These spherular invaginations of outer mitochondrial membranes are packed with electron-dense RNA fibrils and their volumes are closely correlated with RNA replication template length. Each spherule{\textquoteright}s necked aperture is crowned by a striking cupped ring structure containing multifunctional FHV RNA replication protein A. Subtomogram averaging of these crowns revealed twelve-fold symmetry, concentric flanking protrusions, and a central electron density. Many crowns were associated with long cytoplasmic fibrils, likely to be exported progeny RNA. These results provide new mechanistic insights into positive-strand RNA virus replication compartment structure, assembly, function and control.</p>
},
	issn = {2050-084X},
	doi = {10.7554/eLife.25940},
	author = {Ertel, Kenneth J and Benefield, Desir{\'e}e and Casta{\~n}o-Diez, Daniel and Pennington, Janice and Horswill, Mark and den Boon, Johan A and Otegui, Marisa and Ahlquist, Paul}
}
@article {1450,
	title = {Alignment of cryo-electron tomography datasets.},
	journal = {Methods in Enzymology},
	volume = {482},
	year = {2010},
	month = {2010},
	pages = {343-67},
	abstract = {<p>Data acquisition of cryo-electron tomography (CET) samples described in previous chapters involves relatively imprecise mechanical motions: the tilt series has shifts, rotations, and several other distortions between projections. Alignment is the procedure of correcting for these effects in each image and requires the estimation of a projection model that describes how points from the sample in three-dimensions are projected to generate two-dimensional images. This estimation is enabled by finding corresponding common features between images. This chapter reviews several software packages that perform alignment and reconstruction tasks completely automatically (or with minimal user intervention) in two main scenarios: using gold fiducial markers as high contrast features or using relevant biological structures present in the image (marker-free). In particular, we emphasize the key decision points in the process that users should focus on in order to obtain high-resolution reconstructions.</p>
},
	keywords = {Computer-Assisted, Cryoelectron Microscopy, Electron Microscope Tomography, Image Processing},
	issn = {1557-7988},
	doi = {10.1016/S0076-6879(10)82014-2},
	author = {Amat, Fernando and Casta{\~n}o-Diez, Daniel and Lawrence, Albert and Moussavi, Farshid and Winkler, Hanspeter and Horowitz, Mark}
}
