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Diatom id?
Posted: Tue Apr 06, 2021 12:22 pm
by LouiseScot
I'd be interested if anyone can id this quite intricate marine diatom from the Eastern Mediterranean
Prepared slide in Pleurax.
40x objective, slightly different views and lighting:
- NoDo415nmNikon40x_Crop100pcScale00017.jpg (70.04 KiB) Viewed 2230 times
- Med_Do_10W_Nikon40x_Crop100pc00002.jpg (87.17 KiB) Viewed 2230 times
- Med_Do_10W_Nikon40x_Crop100pc00001.jpg (84.32 KiB) Viewed 2230 times
- Do415nmNikon40xCrop100pcScale_00013.jpg (123.37 KiB) Viewed 2230 times
Thanks!
Louise
Re: Diatom id?
Posted: Tue Apr 06, 2021 12:58 pm
by Hobbyst46
A guess - an Amphora species.
Re: Diatom id?
Posted: Tue Apr 06, 2021 3:04 pm
by LouiseScot
Hobbyst46 wrote: ↑Tue Apr 06, 2021 12:58 pm
A guess - an Amphora species.
Oh ok - there seems to be an awful lot of them!
Here's a quick stack I did (8 frames). I'm not very skilled at stacking...
'High' preference
- Med40xNikon415nm_sup1_Hi20_fil1_8F_Crop100pcscale.jpg (73.06 KiB) Viewed 2211 times
'Low' preference
- Med40xNikon415nm_sup1_Lo-20_fil1_8F_Crop100pcscale.jpg (72.8 KiB) Viewed 2211 times
Louise
Re: Diatom id?
Posted: Tue Apr 06, 2021 3:34 pm
by Hobbyst46
The excellent resolved stria pattern of image "Do415nmNikon40xCrop100pcScale_00013" is not visible in the stacks. My opinion is that for this diatom, to choose the few images that manifest well focused surfaces and stack them. So I did for a twin of this diatom, albeit I had phase contrast images.
Re: Diatom id?
Posted: Tue Apr 06, 2021 4:06 pm
by LouiseScot
Hobbyst46 wrote: ↑Tue Apr 06, 2021 3:34 pm
The excellent resolved stria pattern of image "Do415nmNikon40xCrop100pcScale_00013" is not visible in the stacks. My opinion is that for this diatom, to choose the few images that manifest well focused surfaces and stack them. So I did for a twin of this diatom, albeit I had phase contrast images.
I only used Picolay here - Since the end of last year I have Zerene Stacker (on another system) but haven't got around to trying it yet!
I never quite understand how stacking works when you want to see internal structures. I suppose it doesn't, very well! The focus at high NA is critical. I made a little lever to aid adjustment
- FocusLever_Crop.jpg (19.53 KiB) Viewed 2203 times
I'll certainly try again, and as you suggest though my expectations aren't great... The striae patterns were only in more or less one layer, I think, so not many options. But I'll have another go and see what I can do - many thanks!
ps Have you posted pics of your phase contrast version? I'd love to see them
Louise
Re: Diatom id?
Posted: Tue Apr 06, 2021 4:29 pm
by Hobbyst46
I think that the main differences between stacking softwares is speed, efficiency, user friendliness etc rather than the quality of the final product.
My preferred stacking program is Toupview (free I think). Tab "Process"->"EDF" (extended depth of focus). Superb software in general.
Here is a stack. Although, re-thinking, phase contrast are not ideal for stacking.
P.S. I like the focusing lever !
Re: Diatom id?
Posted: Tue Apr 06, 2021 4:36 pm
by LouiseScot
Hobbyst46 wrote: ↑Tue Apr 06, 2021 4:29 pm
I think that the main differences between stacking softwares is speed, efficiency, user friendliness etc rather than the quality of the final product.
My preferred stacking program is Toupview (free I think). Tab "Process"->"EDF" (extended depth of focus). Superb software in general.
Here is a stack. Although, re-thinking, phase contrast are not ideal for stacking.
P.S. I like the focusing lever !
Yours is overall much better than mine!
Picolay is free - written by a German, I think -
www.picolay.de
The Zerene Stacker wasn't free!
My hands don't always do quite what I want them to these days
The little lever helps. It just clamps on so easy to remove, if necessary.
Cheers
Louise