Bob Hughes | Oregon State University (original) (raw)

Papers by Bob Hughes

The Journal of biological chemistry, Jan 22, 2012

Plant photoreceptors transduce environmental light cues to downstream signaling pathways, regulat... more Plant photoreceptors transduce environmental light cues to downstream signaling pathways, regulating a wide array of processes during growth and development. Two major plant photoreceptors with critical roles in photomorphogenesis are phytochrome B (phyB), a red/far-red absorbing photoreceptor, and cryptochrome 1 (CRY1), a UV-A/blue photoreceptor. Despite substantial genetic evidence for cross-talk between phyB and CRY1 pathways, a direct interaction between these proteins has not been observed. Here, we report that Arabidopsis phyB interacts directly with CRY1 in a light-dependent interaction. Surprisingly, the interaction is light-dissociated; CRY1 interacts specifically with the dark/far-red (Pr) state of phyB, but not with the red light-activated (Pfr) or the chromophore unconjugated form of the enzyme. The interaction is also regulated by light activation of CRY1; phyB Pr interacts only with the unstimulated form of CRY1 but not with the photostimulated protein. Further studies...

Methods (San Diego, Calif.), 2012

A variety of methods exist for inducible control of DNA transcription in yeast. These include the... more A variety of methods exist for inducible control of DNA transcription in yeast. These include the use of native yeast promoters or regulatory elements that are responsive to small molecules such as galactose, methionine, and copper, or engineered systems that allow regulation by orthogonal small molecules such as estrogen. While chemically regulated systems are easy to use and can yield high levels of protein expression, they often provide imprecise control over protein levels. Moreover, chemically regulated systems can affect many other proteins and pathways in yeast, activating signaling pathways or physiological responses. Here, we describe several methods for light mediated control of DNA transcription in vivo in yeast. We describe methodology for using a red light and phytochrome dependent system to induce transcription of genes under GAL1 promoter control, as well as blue light/cryptochrome dependent systems to control transcription of genes under GAL1 promoter or LexA operato...

Journal of Experimental Psychology-learning Memory and Cognition, 2005

A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted... more A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted if a single deviation in the interstimulus interval occurred within otherwise regularly presented task-irrelevant spoken items. The degree of disruption was the same whether the temporal deviant was embedded in a sequence made up of a repeating item or a sequence of changing items. Moreover, the

Dalton Transactions, 2010

New quaternary bimetallic nitride halides and the first examples of quintinary nitride mixed hali... more New quaternary bimetallic nitride halides and the first examples of quintinary nitride mixed halides have been synthesised in the phase system Ca - Sr - N - Cl - Br. The variation in structure with composition has been investigated by powder X-ray and powder neutron diffraction techniques. All compounds crystallise in the R-3m spacegroup, with the anti-alpha-NaFeO(2) structure. The layered compounds exhibit unprecedented coexistent disorder of both cations and anions in which only nitride solely occupies a discrete crystallographic position. [N(Ca,Sr)(2)](+) layers alternate with halide ions (Cl, Br)(-), which fill the octahedral voids between the positively charged sheets. A dual cationic-anionic substitution approach allows all aspects of the anisotropic structure to be controlled, including the thickness of the ionic layers and the [N(Ca,Sr)(2)](+) interlayer spacing.

Journal of Solid State Chemistry, 2012

Samples of ternary nitride fluorides, Mg 3 NF 3 and Mg 2 NF have been prepared by solid state rea... more Samples of ternary nitride fluorides, Mg 3 NF 3 and Mg 2 NF have been prepared by solid state reaction of Mg 3 N 2 and MgF 2 at 1323-1423 K and investigated by powder X-ray and powder neutron diffraction techniques. Mg 3 NF 3 is cubic (space group: Pm3m) and has a structure related to rock-salt MgO, but with one cation site vacant. Mg 2 NF is tetragonal (space group: I4 1 /amd) and has an anti-LiFeO 2 related structure. Both compounds are essentially ionic and form structures in which nitride and fluoride anions are crystallographically ordered. The nitride fluorides show temperature independent paramagnetic behaviour between 5 and 300 K.

Nature Methods, 2010

brief communications nature methods | VOL.7 NO.12 | DECEMBER 2010 | 973 been developed that achie... more brief communications nature methods | VOL.7 NO.12 | DECEMBER 2010 | 973 been developed that achieves fast temporal and subcellular spatial resolution without the need for exogenous cofactors.

Journal of Experimental Psychology: Learning, Memory, and Cognition, 2005

A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted... more A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted if a single deviation in the interstimulus interval occurred within otherwise regularly presented task-irrelevant spoken items. The degree of disruption was the same whether the temporal deviant was embedded in a sequence made up of a repeating item or a sequence of changing items. Moreover, the effect was evident during the presentation of the to-be-remembered sequence but not during rehearsal just prior to recall, suggesting that the encoding of sequences is particularly susceptible. The results suggest that attentional capture is due to a violation of an algorithm rather than an aggregate-based neural model and further undermine an attentional capture-based account of the classical changing-state irrelevant sound effect.

Journal of Experimental Psychology: Learning, Memory, and Cognition, 2012

The role of memory in behavioral distraction by auditory attentional capture was investigated: We... more The role of memory in behavioral distraction by auditory attentional capture was investigated: We examined whether capture is a product of the novelty of the capturing event (i.e., the absence of a recent memory for the event) or its violation of learned expectancies on the basis of a memory for an event structure. Attentional capture-indicated by disruption of a focal visually presented serial recall taskwas found when the voice conveying a concurrent irrelevant auditory sequence changed every 5 recall trials (from male to female or vice versa). There was no evidence of attentional capture when the irrelevant sequence was first encountered and hence novel; capture occurred only when an expectation for a particular voice had been learned and then violated. Furthermore, with the increasing predictability of (and hence expectancy for) the voice changes across the experimental session, the capture response diminished only to be reinstated when that session-wide expectation was itself violated by a break in the change-every-5-trials pattern. The results highlight the critical role of learned expectations, as opposed to novelty detection, in behavioral auditory attentional capture.

Air Quality, Atmosphere & Health, 2012

The Journal of biological chemistry, Jan 22, 2012

Plant photoreceptors transduce environmental light cues to downstream signaling pathways, regulat... more Plant photoreceptors transduce environmental light cues to downstream signaling pathways, regulating a wide array of processes during growth and development. Two major plant photoreceptors with critical roles in photomorphogenesis are phytochrome B (phyB), a red/far-red absorbing photoreceptor, and cryptochrome 1 (CRY1), a UV-A/blue photoreceptor. Despite substantial genetic evidence for cross-talk between phyB and CRY1 pathways, a direct interaction between these proteins has not been observed. Here, we report that Arabidopsis phyB interacts directly with CRY1 in a light-dependent interaction. Surprisingly, the interaction is light-dissociated; CRY1 interacts specifically with the dark/far-red (Pr) state of phyB, but not with the red light-activated (Pfr) or the chromophore unconjugated form of the enzyme. The interaction is also regulated by light activation of CRY1; phyB Pr interacts only with the unstimulated form of CRY1 but not with the photostimulated protein. Further studies...

Methods (San Diego, Calif.), 2012

A variety of methods exist for inducible control of DNA transcription in yeast. These include the... more A variety of methods exist for inducible control of DNA transcription in yeast. These include the use of native yeast promoters or regulatory elements that are responsive to small molecules such as galactose, methionine, and copper, or engineered systems that allow regulation by orthogonal small molecules such as estrogen. While chemically regulated systems are easy to use and can yield high levels of protein expression, they often provide imprecise control over protein levels. Moreover, chemically regulated systems can affect many other proteins and pathways in yeast, activating signaling pathways or physiological responses. Here, we describe several methods for light mediated control of DNA transcription in vivo in yeast. We describe methodology for using a red light and phytochrome dependent system to induce transcription of genes under GAL1 promoter control, as well as blue light/cryptochrome dependent systems to control transcription of genes under GAL1 promoter or LexA operato...

Journal of Experimental Psychology-learning Memory and Cognition, 2005

A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted... more A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted if a single deviation in the interstimulus interval occurred within otherwise regularly presented task-irrelevant spoken items. The degree of disruption was the same whether the temporal deviant was embedded in a sequence made up of a repeating item or a sequence of changing items. Moreover, the

Dalton Transactions, 2010

New quaternary bimetallic nitride halides and the first examples of quintinary nitride mixed hali... more New quaternary bimetallic nitride halides and the first examples of quintinary nitride mixed halides have been synthesised in the phase system Ca - Sr - N - Cl - Br. The variation in structure with composition has been investigated by powder X-ray and powder neutron diffraction techniques. All compounds crystallise in the R-3m spacegroup, with the anti-alpha-NaFeO(2) structure. The layered compounds exhibit unprecedented coexistent disorder of both cations and anions in which only nitride solely occupies a discrete crystallographic position. [N(Ca,Sr)(2)](+) layers alternate with halide ions (Cl, Br)(-), which fill the octahedral voids between the positively charged sheets. A dual cationic-anionic substitution approach allows all aspects of the anisotropic structure to be controlled, including the thickness of the ionic layers and the [N(Ca,Sr)(2)](+) interlayer spacing.

Journal of Solid State Chemistry, 2012

Samples of ternary nitride fluorides, Mg 3 NF 3 and Mg 2 NF have been prepared by solid state rea... more Samples of ternary nitride fluorides, Mg 3 NF 3 and Mg 2 NF have been prepared by solid state reaction of Mg 3 N 2 and MgF 2 at 1323-1423 K and investigated by powder X-ray and powder neutron diffraction techniques. Mg 3 NF 3 is cubic (space group: Pm3m) and has a structure related to rock-salt MgO, but with one cation site vacant. Mg 2 NF is tetragonal (space group: I4 1 /amd) and has an anti-LiFeO 2 related structure. Both compounds are essentially ionic and form structures in which nitride and fluoride anions are crystallographically ordered. The nitride fluorides show temperature independent paramagnetic behaviour between 5 and 300 K.

Nature Methods, 2010

brief communications nature methods | VOL.7 NO.12 | DECEMBER 2010 | 973 been developed that achie... more brief communications nature methods | VOL.7 NO.12 | DECEMBER 2010 | 973 been developed that achieves fast temporal and subcellular spatial resolution without the need for exogenous cofactors.

Journal of Experimental Psychology: Learning, Memory, and Cognition, 2005

A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted... more A novel attentional capture effect is reported in which visual-verbal serial recall was disrupted if a single deviation in the interstimulus interval occurred within otherwise regularly presented task-irrelevant spoken items. The degree of disruption was the same whether the temporal deviant was embedded in a sequence made up of a repeating item or a sequence of changing items. Moreover, the effect was evident during the presentation of the to-be-remembered sequence but not during rehearsal just prior to recall, suggesting that the encoding of sequences is particularly susceptible. The results suggest that attentional capture is due to a violation of an algorithm rather than an aggregate-based neural model and further undermine an attentional capture-based account of the classical changing-state irrelevant sound effect.

Journal of Experimental Psychology: Learning, Memory, and Cognition, 2012

The role of memory in behavioral distraction by auditory attentional capture was investigated: We... more The role of memory in behavioral distraction by auditory attentional capture was investigated: We examined whether capture is a product of the novelty of the capturing event (i.e., the absence of a recent memory for the event) or its violation of learned expectancies on the basis of a memory for an event structure. Attentional capture-indicated by disruption of a focal visually presented serial recall taskwas found when the voice conveying a concurrent irrelevant auditory sequence changed every 5 recall trials (from male to female or vice versa). There was no evidence of attentional capture when the irrelevant sequence was first encountered and hence novel; capture occurred only when an expectation for a particular voice had been learned and then violated. Furthermore, with the increasing predictability of (and hence expectancy for) the voice changes across the experimental session, the capture response diminished only to be reinstated when that session-wide expectation was itself violated by a break in the change-every-5-trials pattern. The results highlight the critical role of learned expectations, as opposed to novelty detection, in behavioral auditory attentional capture.

Air Quality, Atmosphere & Health, 2012