Sunday, February 19, 2017

Couple More Flash Pics - 19 Feb 2017


I took a few more pics this morning using [TTL][FP] and Aperture-Priority on the Nikon SB-900 / D500. Both the Tufted Titmouse and Black-capped Chickadee were exposed 1/350 sec at ISO 640 at f/5.6.  So, this appears to confirm my suspicion; if I want to shoot at least 1/1000 sec using Aperture-Priority then I need to bump ISO to high enough level to REQUIRE 1/1000 sec.


Saturday, February 18, 2017

Understanding High-Speed Sync Flash - 18 Feb 2017


I'm going to Panama's Canopy Lodge next week and want to take the Nikon SB-900 Flash for those low-light / high contrast photo situations that will inevitably occur while out birding. High-Speed Sync [TTL][FP] will allow me to maintain high shutter speeds but requires me to shoot in Manual Mode for it to operate properly.

I normally shoot in Aperture-Priority Mode, and if I'm shooting ISO-Auto then I can maintain a minimum shutter speed of 1/1000 sec. at f/5 and let the camera adjust ISO to maintain proper exposure. However, if I turn the flash unit ON then the camera automatically reverts to a maximum sync rate of 1/250 sec or slower. Case in point: note the Black-capped Chickadee in the thickets below. I was shooting Aperture-Priority at 1/2000 sec minimum shutter speed at f/5. The camera exposed the bird at ISO 2000. Result? Sharp-but-GRAINY.


When I turned the flash on to [TTL][FP] the bird was exposed at 1/250 sec. at ISO 200 (which I set as the minimum Auto-ISO shutter level). This suggests that the camera reverted to its normal sync rate of 1/250 sec and adjusted power to expose the image at ISO 200? Result? Exposed-but-BLURRY. This is what we typically run into when photographing warblers at Magee Marsh in low light situations. "Lots of motion in our bird photos" - not good.

I tried shooting Manual at 1/1000 sec at f/5 w/ Auto-ISO (minimum 200) and tried the flash, but exposures were severely dark. ??? This seemed to suggest that the camera was trying to expose flash power to maintain the minimum ISO of 200. So I tried shooting using Repeat Flash [RPT] at ⅛ power. I've had some success w/ this in terms of getting proper exposures (more natural background lighting) but again, the shutter defaults to 1/250 sec (the maximum sync rate of flash/camera). Note the House Finch against a bright sky. Severely underexposed when shooting Aperture-Priority / Auto-ISO because the camera is trying to compensate for the bright sky. With the flash, the exposure is clean, but shutter speed is dropped and results in motion-blur, even w/ stationary subject.


To test if the Minimum ISO Default is really occurring, I took a few exposures of an American Goldfinch w/o the flash, then WITH THE FLASH ON AFTER INCREASING ISO to 1000. Sure enough, the camera allowed me to shoot at 1/1000 second at f/5 w/ the minimum ISO set to 1000 and produced a properly exposed image!

Natural Light
Aperture-Priority, [TTL][TTL], AutoISO 1000, 1/1000 sec, f/5

Seemed to work! I then tried it on some Tufted Titmice that were visiting the feeder. 
Top image is without flash, and bottom image is with flash.



The whole purpose of this exercise is to try to maintain background lighting that is natural. Using the flash generally causes the background to get darker because the flash is providing the majority of light.

I then got smart(er) and set minimum ISO to 640; this allowed me to shoot w/ and w/o the flash w/o having to make any other adjustments than to just turn on/off the flash. This male Northern Cardinal was hit with 4 frames of consecutive flash at [TTL][FP] at -1.0 exp. comp. in the middle of a sunny afternoon. Note how the flash becomes progressively weaker from the 1st frame to the 4th, where it did not fire at all.


This is a case where flash really isn't needed, but is used to illustrate how to preserve background lighting on bright days.

No flash

Black-capped Chickadee and Tufted Titmouse w/ flash [TTL][FP] -2.0 exp.comp
1/1250 sec., f/5.6, ISO 640 (VR=Off by accident)
* Just a note about use of flash. I found that the birds were oblivious to the flash and did not react in any way that would suggest adverse effects. 

Sunday, February 5, 2017

SuperbOwl Sunday - 5 Feb 2017


My only contribution for this special day. Saw-Whet Owl at Crane Creek, OH.


Which one was digiscoped?

Monday, January 30, 2017

Exploring Iridescence in Ruby-throated Hummingbirds - 29 Jan 2017


[I'm dedicating this blog post to Robert "Dr. Bob" Setzer, who graciously sent me a book entitled, "Evenings at the Microscope" by Philip Henry Gosse, D. Appleton and Company, New York, 1883. Flipping through this volume inspired me to finally write up some personal research I conducted at BASF back in 2012. Please note that this work has not been peer-reviewed. Therefore, any information therein may be construed as Alternative Fact...]

So, here's the backstory. I had come across a blog post by David Sibley discussing why some Ruby-throated Hummingbirds (Archilochus colubris) appear to have orange gorget feathers. The discussion included references to "plates" and "air bubbles" in the barbules of the hummingbird's feathers, and possible causes for the dilution of color from ruby-red to orange. This also came on the heels of me collecting a female Ruby-throated Hummingbird carcass that was found by building maintenance that very morning - I would tag the bird and later give it to a local metropark for their collection.

Since I did not understand a bit of the discussion regarding plates and air bubbles in the feathers, I remember asking the question, "So, which is it? Plates or air bubbles". As a Sr. Research Microscopist at BASF I decided to do a bit of researching to learn more about hummingbird iridescence. A quick Google search produced limited results, but the Hummingbird Website produced a pretty concise explanation. In short, air-filled platelets in the barbules of the gorget feathers act a diffraction gradient to scatter light at specific angles and wavelengths to produce the intense color that ranges from red to brown to black. Greenwalt (1960) summarized it best:

“ Nature varies the iridescent colors of hummingbirds by varying the thickness of the platelets and their air content.  Melanin reinforcements in the air gaps create the continuous RI variations that lead to pure and stable color formation.  Stacking increases color brilliance” 

A more thorough search produced some surprising results. It turns out that Isaac Newton (1704) correctly predicted that iridescence is caused by interference or the presence of thin films in the feathers. Michelson (1911) suggested 'selected reflection' or surface colors seen in reflection on metals or an organic material of high specific absorption. Lord Rayleigh (1919) believed in Newton's Rings or interference coloration and postulated that periodic structures in individual feathers were present. Bancroft, Chamot, and Merritt (1922) discovered plate-like structures in the barbules of individual feathers: broad, flattened and segmented. Since boiling in organic solvents failed to produce color, pigments were ruled out. They also discovered that the angle of incidence is important: barbules in the gorget feathers are angled toward the head instead of the plane of the feather (~45 degrees). Turns out that Rayleigh was right, and Michelson was wrong...
Schmidt (1952) used Hi-Resolution LM to describe a mosaic of plate-like structures of melanin surrounded by a skin of keratin. Greenwalt (1960) would then use spectral reflectance and electron microscopy to verify the presence of stacks of platelets filled w/ air gaps. He concluded that iridescence of hummingbird feathers can be attributed quantitatively to interference of light passing through and being reflected back through these structures, which measure 2-3 microns long, 1-1.5 microns wide, and 100-200 nanometers thick.


Greenwalt, 1960
Greenwalt, 1960


Having some time, I decided to collect a loose back feather from the dead hummer and see what I could learn using my light microscopes (LM), scanning electron microscope (SEM) and atomic force microscope (AFM) that I have access to in the lab. I was specifically interested to see if AFM could produce some new information (see below).

Examination of the female Ruby-throated Hummingbird reveals iridescent green back feathers. The outer feathers appear iridescent while inner feathers do not. These feathers are visually different from tail or flight feathers that are colored but not iridescent.



I removed a single loose feather and examined it under the light microscope using both reflected and transmitted light. The feather consists of a central shaft with barbs radiating outward along its length. Attached to the barbs are individual barbules that provide the iridescence. Note that not all barbules are iridescent: those near the base of the shaft are colorless or transparent much like the inner back feathers.



Closer examination of the barbules show that they are connected to each other by velcro-like structures called barbicels.


Under the scanning electron microscope the barbicel structures can be seen, as well as the individual barbules attached to the central barb. On this particular sample I noticed residue on the barbules that could be dander, or possibly feather mite eggs, I dunno... I false-colored the SEM images to show the green coloration of the barbules in question. Note the angle of the barbules w/r to the barb; they are oriented open-faced at ~45 degrees to their counterpart on the other side of the barb, and are slightly turned inward as you move toward the tip of the barb.


Because SEM is a surface-scanning microscope (unlike the transmission electron microscope, or TEM, images of Greenwalt's) the surface of individual barbules produced little information. I could only make out impressions of plate-like structures below the outer layer of keratin. Otherwise, the surface appeared smooth and without any visible microstructure.


AFM

Next, I turned to the atomic force microscope (AFM). AFM was first developed in the early 80's by Binnig and Quate. Also called scanning probe microscopy (SPM) the technique utilizes a thin, springboard probe with a pyramid-shaped silicon tip that has a tip diameter of only a few nanometers (imagine a record-player stylus with a diamond tip but shrunk to microscopic size). A laser is bounced off the thin ceramic springboard onto a quadrant photodiode that monitors tip deflection as the probe is scanned across the sample surface (much like braille). We call it atomic force microscopy because the tip deflection is sensitive to the pico-newton attractive or repulsive forces that occur as two surfaces approach each other. A feedback loop ensures that the tip and surface maintain a constant deflection so that large protrusions don't break the tip. This link demonstrates how the technique works.

If we now vibrate the probe at its resonance frequency (called TappingMode™or Phase-imaging), then we can 'tap' the surface as we scan the sample. This does 2 things: 1)  it reduces tip-surface interactions that can cause the probe to stick-or-slip during scanning, such as adsorbed moisture or sticky residue, and 2) it can generate information about the viscoelastic behavior of the sample. Because the probe is vibrated with a set frequency and amplitude as it taps the surfaces, the "response" frequency and amplitude for an ideally-hard surface (diamond, for example) would be the same amplitude and phase. However, when the probe contacts a softer surface, the amplitude response is dampened, and there is a corresponding delay in the frequency response (or phase-shift). By monitoring the shift in phase we can generate high-resolution "Phase" images that provide information about the hard-soft properties of a material: harder materials appear brighter and softer materials appear darker.


In this following example of a polymer blend, the Height (topography) image provides little information since it was microtomed flat. The Phase (viscoelasticity) image, however, shows a blend of soft (dark) and hard (bright) polymer domains. The top image has a hard matrix, while the lower image shows a soft matrix.


Green back feather

So, getting back to our iridescent green barbule of the female hummingbird, by placing the AFM probe on the open face of an individual barbule the TappingMode™Height and Phase images reveal several interesting features:


The 5µmX5µm Height image on the left shows platelets just below the surface layer of keratin. The Phase image on the right shows that the keratin has a lamellar structure that runs parallel to the orientation of the platelets (or the length of the barbule). Note, however, in the lower right corner the tiny platelet that is oriented sideways! This indicates that the platelets are not fixed in space, and may float inside the barbule. This is perhaps the first AFM image taken of a hummingbird barbule and shows that the keratin skin layer is not smooth. Does the keratin layer contribute to coloration?

Here is another scan of a green barbule surface. In this case the orientation of the platelets are off plane w/ the keratin's lamellar direction. Several platelets are almost perpendicular in orientation.


Now compare these images with a non-iridescent barbule. The keratin lamellar structures are visible in both Height and Phase images, but, since the platelets are not present we only see the keratin skin layer.


Here are 3-D Height images of the barbules w/ and w/o the melanin platelets.


The next challenge involves trying to get Cross-sections of individual barbules and platelets. I took several barbules and embedded them in clear nail polish. After the polish hardened I ultramicrotomed the block with a diamond knife to produce a 50 nm smooth block face for additional AFM imaging. Here is the microtomed block face under reflected light compared to a top view image. You can see the curved arrangement of individual barbules on edge.


TappingMode™ AFM images of the microtomed block face are shown below. Individual barbules show up to 6 layers of platelets with each platelet consisting of multi-celled chambers. An artifact of microtoming is residue collecting inside the chambers - I could not find a way around it.



Curiously, several of the larger melanin platelets appear to contain 2 layers of hollow chambers. Also note the distance between the outside keratin layer and first layer of platelets is ~100 nm.

Gorget feather

Examination of the gorget, or throat feather of the male Ruby-throated Hummingbird reveals bright red iridescent barbules in the distal (outer) third of the feather. The reverse side of the feather shows no iridescence.


Examination of a single barb reveals a range of clear/transparent barbules transitioning to a thin band of iridescent green barbules transitioning to brilliant iridescent-red barbules. Under the SEM the individual barbules are angled 90 degrees to their adjoining neighbors.



Things get VERY interesting at this point. Notice that as you follow the individual barbules from the clear-to-green-to-red regions the barbule orientation gradually curls inward until the iridescent red region is actually caused by reflectance off the BACK side of the barbules.



This suggests that the bright iridescent red coloration of the gorget feathers is caused by light passing through the backs of individual barbules.  To verify this, I performed AFM scans of the front surface of an individual red barbule and saw only the keratin skin layer. Conversely, when I scanned the back side of the barbule I could see the melanin platelets! Note how tightly packed the individual platelets are relative to the platelets in the green barbules.

5µ mX5µ m scan of back side of red barbule
Following this up w/ ultramicrotomed X-sections of individual red barbules revealed stacks of melanin platelets up to 13 layers deep. In the image below 12 individual layers of melanin platelets are visible. Also note that the platelets are more visible in the Phase image at right; this is indicative of enhanced viscoelastic difference between the melanin and keratin matrix.


5µmX5µm scan area - note that upper surface of the X-section is the back of the barbule!

2µmX2µm scan area
I made some measurements of platelet lengths, widths, thicknesses, and gap layers to compare w/ those from the green barbules.


Results indicate that the melanin platelets accounting for green coloration are larger than those accounting for red coloration. Platelets accounting for red coloration, however, are thicker, but with smaller cells or air bubbles relative to the green feather platelets. This is consistent with Greenwalt's (1960) observations that the refractive index (RI) of melanin is 2.2 (vs. 1.0 for air). Platelets responsible for red iridescence measured 1.85 while those responsible for green measured 1.7. Thicker melanin shifts RI toward red, while larger bubbles shift coloration toward blue.

So, where does this go to answer the original question of where orange gorget feathers come from? Some possible explanations may include: 1) worn keratin layer? 2) bleaching of keratin by the sun? 3) collapse of platelet chambers w/ time would thicken overall melanin and shift toward yellow? 4) loss of orientation of individual platelets could occur? 5) change in the angle of adjoining barbs of individual feathers? 6) a combination of all or some of these?

I had hoped to get an orange gorget feather, but sadly, reports of orange-throated hummingbirds were not forthcoming. So, the true answer will probably need to come from someone a bit more knowledgeable than me. Still, this was a fun and challenging project. Unfortunately, work demands have forced this side project to the back burner permanently, so no new information will be coming any time soon.

I'll finish this off with an image of the melanin platelets using an AFM technique called PeakForce™ Quantitative Nano-Mechanical (QNM) imaging. This technique allows an operator to use a calibrated AFM probe to quantitatively map mechanical properties, such as Young's Modulus (stiffness) or Adhesion, in real time. The following image is a Modulus map of the red gorget feather barbule showing individual melanin platelets against the keratin matrix. The bright contrast of the melanin platelets is due to their increase modulus relative to the softer barbule matrix. The bright edges of the voids in individual platelets are caused by the side of the probe contacting the chamber walls, thus increasing the effective tip radius and thus creating a false-increase in modulus.

Uncalibrated PeakForce™QNM™ Modulus map


Acknowledgements

I wish to thank Janet Hinshaw and the University of Michigan's Museum of Natural History for the red gorget feathers. Also to Sherri Williamson (pers. comm.) and Allen Chartier (pers. comm.). And, especially to BASF Corporation for use of their laboratory equipment.

References:

Bancroft, W.D., Journal of Industrial and Engineering Chemistry, (1922), Vol. 14, No. 10, pp. 808-809,
Doucet, S.M., Shawkey, M.D., Hill, G.E., Montgomerie, R., Iridescent plumage in satin bowerbirds: structure, mechanisms and nanostructural predictors of individual variation in colour, 2006, The Journal of Experimental  Biology, 209, 380-390.
Greenwalt, C.H., Brandt, W., Friel, D.D., Iridescent colors of Hummingbird Feathers, Journal of the Optical Society of America, (1960) Vol. 50, No. 10, 1005-1013. 3
Johnsgard, Paul A., The Hummingbirds of North America (1997), 2nd ed., published by Smithsonian Institution Press in Washington, DC.)
Maia, R., Caetano, J.V.O., Ba ́o, S.N., Macedo, R.H.,Iridescent structural colour production in male blue-black grassquit feather barbules: the role of keratin and melanin, J. R. Soc. Interface (2009) 6, S203–S211
Michelson, A.A., Phil. Mag. 21, 554 (1911)
Newton, I. Treatise on Opticks, (1704), London, Vol. 2, p. 55.
Rayleigh, L., Phil. Mag. 37, 98 (1919)
Schmidt, W.J., Z. Naturforsch. 3b, 55 (1948); Naturwissenschaften 14, 313 (1952)

Saturday, January 28, 2017

Nikon Speedlight SB-900 Flash - 28 Jan 2017




I have had this flash for 7 years and have never used it. Brand new. Until today.

The Nikon Speedlight SB-900 Flash was introduced in 2008.  Robin and I purchased one in 2010 right after Nikon introduced the D70 Camera. I had the Nikon SB-800 Flash and was plenty happy with it. So, I never had the need to use it. Robin hadn't gotten around to use it, so it sat. With today being a dark, overcast day I decided to unpack it and give it a play.

I spent some time playing w/ the menus and did some searching to determine best settings for using it for bird photography. In the menu for the Nikon D500 Camera I went to Flash/Bracketing Menu and set it for syncing at 1/250 (Auto FP). In this mode the camera will operate using TTL up to 1/250 sec, and use High-Speed Sync up to 1/8000 sec. The flash was set at [TTL][FP]. Note: there has a lot of discussion about when to use [TTL][FP] vs. [TTL][BL][FP], which is also a menu option. The latter tends to correct for ambient light, but tends to produce darker backgrounds.

I took some test shots w/ the flash while using the camera set to Aperture Priority. I normally have it set to Auto-ISO with a minimum shutter speed of 1/1000 sec. With the flash set to [TTL][FP] w/ Exp Comp set to -0.7 this House Finch exposed well, but shows some motion-blur because the camera selected a shutter speed of 1/100 sec at f/5 and ISO 400 for an EFL of 500mm. Incidentally, I also used a Better Beamer Flash Extender purchased for the SB-900.

When I switched to Manual Mode and selected a Shutter Speed of 1/1000 sec. at f/5.6 the SB-900 exposed this American Goldfinch nicely (a bit overexposed, but nothing that Lightroom couldn't correct easily). Compare it to the same exposure w/ the flash off.  1/1000 sec., f/5.6, ISO 2800.



The flash did a nice job exposing feather detail. It will produce some steel-eye, but that can also be corrected w/ Photoshop. Tomorrow, I'll have to try it out some more and see what kind of adjustments have to be made to get consistently-good exposures.

No flash
As always, I still prefer natural lighting (including the 1st Goldfinch photo), but there will be times when birds are severely backlit, and a bit of fill flash will improve exposures. I also promise not to use the flash where my subject could get stressed (such as roosting owls).

BTW, the TC17EII Teleconverter worked just fine on the 300/2.8 VRII lens. Vibration reduction worked quietly, and autofocus was smooth and silent. That makes me happy.

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